Modulation of timp1 and timp2 expression

ABSTRACT

Provided herein are compositions, methods and kits for modulating expression of target genes, particularly of tissue inhibitor of metalloproteinase 1 and of tissue inhibitor of metalloproteinase 2 (TIMP1 and TIMP2, respectively). The compositions, methods and kits may include nucleic acid molecules (for example, short interfering nucleic acid (siNA), short interfering RNA (siRNA), double-stranded RNA (dsRNA), micro-RNA (miRNA) or short hairpin RNA (shRNA)) that modulate a gene encoding TIMP1 and TIMP2, for example, the gene encoding human TIMP1 and TIMP2. The composition and methods disclosed herein may also be used in treating conditions and disorders associated with TIMP1 and TIMP2 including fibrotic diseases and disorders including liver fibrosis, pulmonary fibrosis, peritoneal fibrosis and kidney fibrosis.

RELATED PATENT APPLICATIONS

This application claims the benefit of U.S. Provisional Application Ser. No. 61/388,572 filed Sep. 30, 2010 entitled “Modulation of TIMP1 and TIMP2 Expression” and which is incorporated herein by reference in its entirety and for all purposes.

SEQUENCE LISTING

The instant application contains a Sequence Listing which is entitled 224-PCT1_ST25.txt, said ASCII copy, created on Aug. 24, 2011 and is 910 kb in size, is hereby incorporated by reference in its entirety.

FIELD OF THE INVENTION

Provided herein are compositions and methods for modulating expression of TIMP1 and TIMP2.

BACKGROUND OF THE INVENTION

Sato, Y., et al. disclose the administration of vitamin A-coupled liposomes to deliver small interfering RNA (siRNA) against gp46, the rat homolog of human heat shock protein 47, to liver cirrhosis rat animal models. Sato, Y., et al., Nature Biotechnology, vol. 26(4), p. 431-442 (2008).

Chen, J-J., et al. disclose transfecting human keloid samples with HSP-47-shRNA (small hairpin RNA) to examine proliferation of keloid fibroblast cells. Chen, J-J., et al., British Journal of Dermatology, vol. 156, p. 1188-1195 (2007).

PCT Patent Publication No. WO 2006/068232 discloses an astrocyte specific drug carrier which includes a retinoid derivative and/or a vitamin A analog.

PCT Patent Publication Nos. WO 2008/104978 and WO 2007/091269 disclose siRNA structures and compounds.

PCT Patent Publication No. WO 2011/072082 discloses double stranded RNA compounds targeting HSP47 (SERPINH1).

SUMMARY OF THE INVENTION

Compositions, methods and kits for modulating expression of target genes are provided herein. In various aspects and embodiments, compositions, methods and kits provided herein modulate expression of tissue inhibitor of metalloproteinases 1 and tissue inhibitor of metalloproteinases 2 also known as TIMP1 and TIMP2, respectively. The compositions, methods and kits may involve use of nucleic acid molecules (for example, short interfering nucleic acid (siNA), short interfering RNA (siRNA), double-stranded RNA (dsRNA), micro-RNA (miRNA) or short hairpin RNA (shRNA)) that bind a nucleotide sequence (such as an mRNA sequence) encoding TIMP1 and TIMP2, for example, the mRNA coding sequence for human TIMP1 exemplified by SEQ ID NO:1 and the mRNA coding sequence for human TIMP2 exemplified by SEQ ID NO:2. In certain preferred embodiments, the compositions, methods and kits disclosed herein inhibit expression of TIMP1 or TIMP2. For example, siNA molecules (e.g., RISC length dsNA molecules or Dicer length dsNA molecules) are provided that down regulate, reduce or inhibit TIMP1 or TIMP2 expression. Also provided are compositions, methods and kits for treating and/or preventing diseases, conditions or disorders associated with TIMP1 and TIMP2, including organ specific fibrosis associated with at least one of brain, skin fibrosis, lung fibrosis, liver fibrosis, kidney fibrosis, heart fibrosis, vascular fibrosis, bone marrow fibrosis, eye fibrosis, intestinal fibrosis, vocal cord fibrosis or other fibrosis. Specific indications include liver fibrosis, cirrhosis, pulmonary fibrosis including Interstitial lung fibrosis (ILF), kidney fibrosis resulting from any condition (e.g., CKD including ESRD), peritoneal fibrosis, chronic hepatic damage, fibrillogenesis, fibrotic diseases in other organs, abnormal scarring (keloids) associated with all possible types of skin injury accidental and jatrogenic (operations); scleroderma; cardiofibrosis, failure of glaucoma filtering operation; brain fibrosis associated with cerebral infarction; and intestinal adhesions and Crohn's disease. The compounds are useful in treating organ specific indications including those shown in Table I infra.

In one aspect, provided are nucleic acid molecules (e.g., siNA molecules) in which (a) the nucleic acid molecule includes a sense strand (passenger strand) and an antisense strand (guide strand); (b) each strand of the nucleic acid molecule is independently 15 to 49 nucleotides in length; (c) a 15 to 49 nucleotide sequence of the antisense strand is complementary to a sequence of an mRNA encoding a human TIMP (e.g., SEQ ID NO: 1 or SEQ ID NO:2); and (d) a 15 to 49 nucleotide sequence of the sense strand is complementary to the sequence of the antisense strand and includes a 15 to 49 nucleotide sequence of an mRNA encoding human TIMP1 or TIMP2 (e.g., SEQ ID NO: 1 or SEQ ID NO:2, respectively). In various embodiments the sense and antisense strands generate a 15 to 49 base pair duplex.

In certain embodiments, the sequence of the antisense strand that is complementary to a sequence of an mRNA encoding human TIMP1 includes a sequence complimentary to a sequence between nucleotides 193-813 or 1-192; or 813-893 of SEQ ID NO: 1; or between nucleotides 1-200; or 800-893 of SEQ ID NO: 1.

In certain embodiments the sequence of the antisense comprises an antisense sequence set forth in any one of Tables A1-A8 or C. In preferred embodiments the sequence of the antisense comprises an antisense sequence set forth in Tables A3, A4, A7, A8, or C. In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in Table A3 or Table A4. In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in Table A7 or Table A8. In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in Table C.

In certain embodiments, the sequence of the antisense strand that is complementary to a sequence of an mRNA encoding human TIMP2 includes a sequence complimentary to a sequence between nucleotides 303-962 or 1-303; or 962-3369; of SEQ ID NO: 2; or between nucleotides 1-350; or 950-3369 of SEQ ID NO: 2.

In certain embodiments the sequence of the antisense comprises an antisense sequence set forth in any one of Tables B1-B8 or D. In preferred embodiments the sequence of the antisense comprises an antisense sequence set forth in Tables B3, B4, B7, B8, D. In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in Table B3 or Table B4. In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in Table B7 or Table B8. In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in Table D.

In some embodiments, the antisense strand includes a sequence that is complementary to a sequence of an mRNA encoding human TIMP1 corresponding to nucleotides 355-373 of SEQ ID NO: 1 or a portion thereof; or nucleotides 620-638 of SEQ ID NO: 1 or a portion thereof; or nucleotides 640-658 of SEQ ID NO: 1 or a portion thereof.

In some embodiments, the antisense strand includes a sequence that is complementary to a sequence of an mRNA encoding human TIMP2 corresponding to nucleotides 421-439 of SEQ ID NO: 2 or a portion thereof; or nucleotides 502-520 of SEQ ID NO: 2 or a portion thereof; or nucleotides 523-541 of SEQ ID NO: 2 or a portion thereof; or nucleotides 625-643 of SEQ ID NO: 2 or a portion thereof; or nucleotides 629-647 of SEQ ID NO: 2 or a portion thereof.

In some embodiments, the antisense strand of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes a sequence corresponding to any one of the antisense sequences shown in Table A1 or A5. In certain preferred embodiments the antisense strand and the strand are selected from the sequence pairs shown in Table A1. In certain preferred embodiments the antisense strand and the sense strand are selected from the sequence pairs shown in Table A5. In some preferred embodiments the antisense and sense strands are selected from the sequence pairs shown in Table A3 or Table A7.

In certain embodiments, the antisense strand of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes a sequence corresponding to any one of the antisense sequences shown in Table C.

In various embodiments of nucleic acid molecules (e.g., siNA molecules) as disclosed herein, the antisense strand may be 15 to 49 nucleotides in length (e.g., 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48 or 49 nucleotides in length); or 17-35 nucleotides in length; or 17-30 nucleotides in length; or 15-25 nucleotides in length; or 18-25 nucleotides in length; or 18-23 nucleotides in length; or 19-21 nucleotides in length; or 25-30 nucleotides in length; or 26-28 nucleotides in length. Similarly the sense strand of nucleic acid molecules (e.g., siNA molecules) as disclosed herein may be 15 to 49 nucleotides in length (e.g., 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48 or 49 nucleotides in length); or 17-35 nucleotides in length; or 17-30 nucleotides in length; or 15-25 nucleotides in length; or 18-25 nucleotides in length; or 18-23 nucleotides in length; or 19-21 nucleotides in length; or 25-30 nucleotides in length; or 26-28 nucleotides in length. The duplex region of the nucleic acid molecules (e.g., siNA molecules) as disclosed herein may be 15-49 nucleotides in length (e.g., about 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48 or 49 nucleotides in length); 18-40 nucleotides in length; or 15-35 nucleotides in length; or 15-30 nucleotides in length; or about 15-25 nucleotides in length; or 17-25 nucleotides in length; or 17-23 nucleotides in length; or 17-21 nucleotides in length; or 19-21 nucleotides in length, or 25-30 nucleotides in length; or 25-28 nucleotides in length. In some embodiments the duplex region of the nucleic acid molecules (e.g., siNA molecules) is 19 nucleotides in length.

In certain embodiments, the sense and antisense strands of a nucleic acid (e.g., an siNA nucleic acid molecule) as provided herein are separate polynucleotide strands. In some embodiments, the separate antisense and sense strands form a double stranded structure via hydrogen bonding, for example, Watson-Crick base pairing. In some embodiments the sense and antisense strands are two separate strands that are covalently linked to each other. In other embodiments, the sense and antisense strands are part of a single polynucleotide strand having both a sense and antisense region; in some preferred embodiments the polynucleotide strand has a hairpin structure.

In certain embodiments, the nucleic acid molecule (e.g., siNA molecule) is a double stranded nucleic acid (dsNA) molecule that is symmetrical with regard to overhangs, and has a blunt end on both ends. In other embodiments the nucleic acid molecule (e.g., siNA molecule) is a dsNA molecule that is symmetrical with regard to overhangs, and has an overhang on both ends of the dsNA molecule; preferably the molecule has overhangs of 1, 2, 3, 4, 5, 6, 7, or 8 nucleotides; preferably the molecule has 2 nucleotide overhangs. In some embodiments the overhangs are 5′ overhangs; in alternative embodiments the overhangs are 3′ overhangs. In certain embodiments, the overhang nucleotides are modified with modifications as disclosed herein. In some embodiments the overhang nucleotides are 2′-deoxyribonucleotides.

In some embodiments the molecules comprise non-nucleotide overhangs at one or more of the 5′ or 3′ terminus of the sense and/or antisense strands. Such non-nucleotide overhangs include abasic ribo- and deoxyribo-nucleotide moieties, alkyl moieties including C3-C3 moieties and amino carbon chains.

In certain preferred embodiments, the nucleic acid molecule (e.g., siNA molecule) is a dsNA molecule that is asymmetrical with regard to overhangs, and has a blunt end on one end of the molecule and an overhang on the other end of the molecule. In certain embodiments the overhang is 1, 2, 3, 4, 5, 6, 7, or 8 nucleotides; preferably the overhang is 2 nucleotides. In some preferred embodiments an asymmetrical dsNA molecule has a 3′-overhang (for example a two nucleotide 3′-overhang) on one side of a duplex occurring on the sense strand; and a blunt end on the other side of the molecule. In some preferred embodiments an asymmetrical dsNA molecule has a 5′-overhang (for example a two nucleotide 5′-overhang) on one side of a duplex occurring on the sense strand; and a blunt end on the other side of the molecule. In other preferred embodiments an asymmetrical dsNA molecule has a 3′-overhang (for example a two nucleotide 3′-overhang) on one side of a duplex occurring on the antisense strand; and a blunt end on the other side of the molecule. In some preferred embodiments an asymmetrical dsNA molecule has a 5′-overhang (for example a two nucleotide 5′-overhang) on one side of a duplex occurring on the antisense strand; and a blunt end on the other side of the molecule. In certain preferred embodiments, the overhangs are 2′-deoxyribonucleotides. Examples of siNA compounds having a terminal dTdT are found in Tables C and D, infra.

In some embodiments, the nucleic acid molecule (e.g., siNA molecule) has a hairpin structure (having the sense strand and antisense strand on one polynucleotide), with a loop structure on one end and a blunt end on the other end. In some embodiments, the nucleic acid molecule has a hairpin structure, with a loop structure on one end and an overhang end on the other end (for example a 1, 2, 3, 4, 5, 6, 7, or 8 nucleotide overhang); in certain embodiments, the overhang is a 3′-overhang; in certain embodiments the overhang is a 5′-overhang; in certain embodiments the overhang is on the sense strand; in certain embodiments the overhang is on the antisense strand.

The nucleic acid molecules (e.g., siNA molecule) disclosed herein may include one or more modifications or modified nucleotides such as described herein. For example, a nucleic acid molecule (e.g., siNA molecule) as provided herein may include a modified nucleotide having a modified sugar; a modified nucleotide having a modified nucleobase; or a modified nucleotide having a modified phosphate group. Similarly, a nucleic acid molecule (e.g., siNA molecule) as provided herein may include a modified phosphodiester backbone and/or may include a modified terminal phosphate group.

Nucleic acid molecules (e.g., siNA molecules) as provided may have one or more nucleotides that include a modified sugar moiety, for example as described herein. In some preferred embodiments the modified sugar moiety is selected from the group consisting of 2′-O-methyl, 2′-methoxyethoxy, 2′-deoxy, 2′-fluoro, 2′-allyl, 2′-O-[2-(methylamino)-2-oxoethyl], 4′-thio, 4′-(CH₂)₂—O-2′-bridge, 2′-locked nucleic acid, and 2′-O—(N-methylcarbamate).

Nucleic acid molecules (e.g., siNA molecules) as provided may have one or more modified nucleobase(s) for example as described herein, which preferably may be one selected from the group consisting of xanthine, hypoxanthine, 2-aminoadenine, 6-methyl and other alkyl derivatives of adenine and guanine, 2-propyl and other alkyl derivatives of adenine and guanine, 5-halouracil and cytosine, 5-propynyl uracil and cytosine, 6-azo uracil, cytosine and thymine, 5-uracil (pseudouracil), 4-thiouracil, 8-halo, amino, thiol, thioalkyl, hydroxyl and other 8-substituted adenines and guanines, 5-trifluoromethyl and other 5-substituted uracils and cytosines, 7-methylguanine, and acyclonucleotides.

Nucleic acid molecules (e.g., siNA molecules) as provided may have one or more modifications to the phosphodiester backbone, for example as described herein. In some preferred embodiments the phosphodiester bond is modified by substituting the phosphodiester bond with a phosphorothioate, 3′-(or -5′)deoxy-3′-(or -5′)thio-phosphorothioate, phosphorodithioate, phosphoroselenates, 3′-(or -5′)deoxy phosphinates, borano phosphates, 3′-(or -5′)deoxy-3′-(or 5′-)amino phosphoramidates, hydrogen phosphonates, borano phosphate esters, phosphoramidates, alkyl or aryl phosphonates and phosphotriester or phosphorus linkages.

In various embodiments, the provided nucleic acid molecules (e.g., siNA molecules) may include one or modifications in the sense strand but not the antisense strand; in other embodiments the provided nucleic acid molecules (e.g., siNA molecules) include one or more modifications in the antisense strand but not the sense strand; in yet other embodiments, the provided nucleic acid molecules (e.g., siNA molecules) include one or more modifications in the both the sense strand and the antisense strand.

In some embodiments in which the provided nucleic acid molecules (e.g., siNA molecules) have modifications, the sense strand includes a pattern of alternating modified and unmodified nucleotides, and/or the antisense strand includes a pattern of alternating modified and unmodified nucleotides; in some preferred versions of such embodiments the modification is a 2′-O-methyl (2′ methoxy or 2′OMe) sugar moiety. The pattern of alternating modified and unmodified nucleotides may start with a modified nucleotide at the 5′ end or 3′ end of one of the strands; for example the pattern of alternating modified and unmodified nucleotides may start with a modified nucleotide at the 5′ end or 3′ end of the sense strand and/or the pattern of alternating modified and unmodified nucleotides may start with a modified nucleotide at the 5′ end or 3′ end of the antisense strand. When both the antisense and sense strand include a pattern of alternating modified nucleotides, the pattern of modified nucleotides may be configured such that modified nucleotides in the sense strand are opposite modified nucleotides in the antisense strand; or there may be a phase shift in the pattern such that modified nucleotides of the sense strand are opposite unmodified nucleotides in the antisense strand and vice-versa.

The nucleic acid molecules (e.g., siNA molecules) as provided herein may include 1-3 (i.e., 1, 2 or 3) deoxyribonucleotides at the 3′ end of the sense and/or the antisense strand.

The nucleic acid molecules (e.g., siNA molecules) as provided herein may include a phosphate group at the 5′ end of the sense and/or the antisense strand.

In one aspect, provided are double stranded nucleic acid molecules having the structure (A1):

(A1)  5′(N)x - Z  3′ (antisense strand)   3′ Z′-(N′)y -z″ 5′ (sense strand)  wherein each of N and N′ is a nucleotide which may be unmodified or modified, or an unconventional moiety; wherein each of (N)x and (N′)y is an oligonucleotide in which each consecutive N or N′ is joined to the next N or N′ by a covalent bond; wherein each of Z and Z′ is independently present or absent, but if present independently includes 1-5 consecutive nucleotides or non-nucleotide moieties or a combination thereof covalently attached at the 3′ terminus of the strand in which it is present; wherein z″ may be present or absent, but if present is a capping moiety covalently attached at the 5′ terminus of (N′)y; each of x and y is independently an integer from 18 to 40; wherein the sequence of (N′)y has complementarity to the sequence of (N)x; and wherein (N)x includes an antisense sequence to SEQ ID NO:1 or to SEQ ID NO:2.

In some embodiments (N)x includes an antisense sequence to SEQ ID NO:1. In some embodiments (N)x includes an antisense oligonucleotide present in any one of Tables A1, A2, A3 or A4. In other embodiments (N)x is selected from an antisense oligonucleotide present in Tables A3 or A4.

In certain preferred embodiments, the antisense strand of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes a sequence corresponding to any one of the antisense sequences shown on Table A1. In certain preferred embodiments the antisense strand and the strand are selected from the sequence pairs shown in Table A2. In certain preferred embodiments the antisense strand and the strand are active in more than one species (human and at least one other species) and are selected from the sequence pairs shown in Table A2. In certain preferred embodiments the antisense strand and the strand are selected from the sequence pairs shown in Table A3, and preferably in Table A4. In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in duplexes siTIMP1_p2; siTIMP1_p6; siTIMP1_p14; siTIMP1_p16; siTIMP1_p17; siTIMP1_p19; siTIMP1_p20; siTIMP1_p21; siTIMP1_p23; siTIMP1_p24; siTIMP1_p27; siTIMP1_p29; siTIMP1_p31; siTIMP1_p33; siTIMP1_p38; siTIMP1_p42; siTIMP1_p43; siTIMP1_p45; siTIMP1_p49; siTIMP1_p60; siTIMP1_p71; siTIMP1_p73; siTIMP1_p77; siTIMP1_p78; siTIMP1_p79; siTIMP1_p85; siTIMP1_p89; siTIMP1_p91; siTIMP1_p96; siTIMP1_p98; siTIMP1_p99 and siTIMP1_p108, shown in Table A3 infra.

In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in siTIMP1_p2 (SEQ ID NOS:267 and 299); siTIMP1_p6 (SEQ ID NOS:268 and 300); siTIMP1_p14 (SEQ ID NOS:269 and 301); siTIMP1_p16 (SEQ ID NOS:270 and 302); siTIMP1_p17 (SEQ ID NOS:271 and 303); siTIMP1_p19 (SEQ ID NOS:272 and 304); siTIMP1_p20 (SEQ ID NOS:273 and 305); siTIMP1_p21 (SEQ ID NOS:274 and 306); siTIMP1_p23 (SEQ ID NOS:275 and 307; siTIMP1_p29 (278 and 310); siTIMP1_p33 (280 and 312); siTIMP1_p38 (SEQ ID NOS:281 and 313); siTIMP1_p42 (282 and 314); siTIMP1_p43 (SEQ ID NOS:283 and 315); siTIMP1_p45 (284 and 316); siTIMP1_p60 (SEQ ID NOS:286 and 318); siTIMP1_p71 (SEQ ID NOS:287 and 319); siTIMP1_p73 (SEQ ID NOS:288 and 320); siTIMP1_p78 (290 and 322); siTIMP1_p79 (SEQ ID NOS:291 and 323); siTIMP1_p85 (SEQ ID NOS:292 and 324); siTIMP1_p89 (SEQ ID NOS:293 and 325); siTIMP1_p91 (SEQ ID NOS:294 and 326); siTIMP1_p96 (SEQ ID NOS:295 and 327); siTIMP1_p98 (SEQ ID NOS:296 and 328); siTIMP1_p99 (SEQ ID NOS:297 and 329) and siTIMP1_p108 (SEQ ID NOS:298 and 330), shown in Table A4, infra.

In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p2 (SEQ ID NOS:267 and 299). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p6 (SEQ ID NOS:268 and 300). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p14 (SEQ ID NOS:269 and 301). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p16 (SEQ ID NOS:270 and 302). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p17 (SEQ ID NOS:271 and 303). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p19 (SEQ ID NOS:272 and 304). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p20 (SEQ ID NOS:273 and 305). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p21 (SEQ ID NOS:274 and 306). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p23 (SEQ ID NOS:275 and 307. In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p29 (278 and 310). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p33 (280 and 312). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p38 (SEQ ID NOS:281 and 313). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p42 (282 and 314). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p43 (SEQ ID NOS:283 and 315). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p45 (284 and 316). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p60 (SEQ ID NOS:286 and 318). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p71 (SEQ ID NOS:287 and 319). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p73 (SEQ ID NOS:288 and 320). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p78 (290 and 322). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p79 (SEQ ID NOS:291 and 323). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p85 (SEQ ID NOS:292 and 324). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p89 (SEQ ID NOS:293 and 325). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p91 (SEQ ID NOS:294 and 326). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p96 (SEQ ID NOS:295 and 327). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p98 (SEQ ID NOS:296 and 328). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p99 (SEQ ID NOS:297 and 329). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p108 (SEQ ID NOS:298 and 330), shown in Table A4.

In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p2 (SEQ ID NOS:267 and 299). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p6 (SEQ ID NOS:268 and 300). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p16 (SEQ ID NOS:270 and 302). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p17 (SEQ ID NOS:271 and 303). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p19 (SEQ ID NOS:272 and 304). I In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p20 (SEQ ID NOS:273 and 305). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p21 (SEQ ID NOS:274 and 306). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p38 (SEQ ID NOS:281 and 313).

In some embodiments (N)x includes an antisense sequence to SEQ ID NO:2. In some embodiments (N)x includes an antisense oligonucleotide present in any one of Tables B1, B2, B3 or B4. In other embodiments (N)x is selected from an antisense oligonucleotide present in Tables B3 or B4.

In certain preferred embodiments, the antisense strand of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes a sequence corresponding to any one of the antisense sequences shown on Table B1. In certain preferred embodiments the antisense strand and the strand are selected from the sequence pairs shown in Table B2. In certain preferred embodiments the antisense strand and the strand are active in more than one species (human and at least one other species) and are selected from the sequence pairs shown in Table B2. In certain preferred embodiments the antisense strand and the strand are selected from the sequence pairs shown in Table B3, and preferably in Table B4.

In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in siTIMP2_p4; siTIMP2_p16; siTIMP2_p17; siTIMP2_p18; siTIMP2_p20; siTIMP2_p24; siTIMP2_p25; siTIMP2_p27; siTIMP2_p29; siTIMP2_p30; siTIMP2_p33; siTIMP2_p35; siTIMP2_p37; siTIMP2_p38; siTIMP2_p39; siTIMP2_p40; siTIMP2_p41; siTIMP2_p44; siTIMP2_p46; siTIMP2_p51; siTIMP2_p55; siTIMP2_p61; siTIMP2_p62; siTIMP2_p64; siTIMP2_p65; siTIMP2_p67; siTIMP2_p68; siTIMP2_p69; siTIMP2_p71; siTIMP2_p75; siTIMP2_p76; siTIMP2_p78; siTIMP2_p79; siTIMP2_p82; siTIMP2_p83; siTIMP2_p84; siTIMP2_p85; siTIMP2_p86; siTIMP2_p87; siTIMP2_p88; siTIMP2_p89; siTIMP2_p90; siTIMP2_p91; siTIMP2_p92; siTIMP2_p93; siTIMP2_p94; siTIMP2_p95; siTIMP2_p96; siTIMP2_p97; siTIMP2_p98; siTIMP2_p99; siTIMP2_p100; and siTIMP2_p101 and siTIMP2_p102, shown in Table B3, infra.

In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in siTIMP2_p27 (SEQ ID NOS:2478 and 2531); siTIMP2_p29 (SEQ ID NOS:2479 and 2532); siTIMP2_p30 (SEQ ID NOS:2480 and 2533); siTIMP2_p39 (SEQ ID NOS:2485 and 2538); siTIMP2_p40 (SEQ ID NOS:2486 and 2539); siTIMP2_p41 (SEQ ID NOS:2487 and 2540); siTIMP2_p46 (SEQ ID NOS:2489 and 2542); siTIMP2_p55 (SEQ ID NOS:2491 and 2544); siTIMP2_p62 (SEQ ID NOS:2493 and 2546); siTIMP2_p68 (SEQ ID NOS:2497 and 2550); siTIMP2_p69 (SEQ ID NOS:2498 and 2551); siTIMP2_p71 (SEQ ID NOS:2499 and 2552); siTIMP2_p76 (SEQ ID NOS:2501 and 2554); siTIMP2_p78 (SEQ ID NOS:2502 and 2555); siTIMP2_p89 (SEQ ID NOS:2511 and 2564); siTIMP2_p91 (SEQ ID NOS:2513 and 2566); siTIMP2_p93 (SEQ ID NOS:2515 and 2568); siTIMP2_p95 (SEQ ID NOS:2517 and 2570); siTIMP2_p97 (SEQ ID NOS:2519 and 2572); siTIMP2_p98 (SEQ ID NOS:2520 and 2573); and siTIMP2_p100 (SEQ ID NOS:2522 and 2575), shown in Table B4, infra

In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p27 (SEQ ID NOS:2478 and 2531). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p29 (SEQ ID NOS:2479 and 2532). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p30 (SEQ ID NOS:2480 and 2533). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p39 (SEQ ID NOS:2485 and 2538). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p40 (SEQ ID NOS:2486 and 2539). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p41 (SEQ ID NOS:2487 and 2540). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p46 (SEQ ID NOS:2489 and 2542). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p55 (SEQ ID NOS:2491 and 2544). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p62 (SEQ ID NOS:2493 and 2546). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p68 (SEQ ID NOS:2497 and 2550). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p69 (SEQ ID NOS:2498 and 2551). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p71 (SEQ ID NOS:2499 and 2552). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p76 (SEQ ID NOS:2501 and 2554). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p78 (SEQ ID NOS:2502 and 2555). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p89 (SEQ ID NOS:2511 and 2564). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p91 (SEQ ID NOS:2513 and 2566). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p93 (SEQ ID NOS:2515 and 2568). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p95 (SEQ ID NOS:2517 and 2570). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p97 (SEQ ID NOS:2519 and 2572). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p98 (SEQ ID NOS:2520 and 2573). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p100 (SEQ ID NOS:2522 and 2575). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p102 (SEQ ID NOS:1007 and 1622).

In some embodiments the covalent bond joining each consecutive N or N′ is a phosphodiester bond.

In some embodiments x=y and each of x and y is 19, 20, 21, 22 or 23. In various embodiments x=y=19. In some embodiments the antisense and sense strands form a duplex by base pairing.

According to one embodiment provided are modified nucleic acid molecules having a structure (A2) set forth below:

(A2) 5′ N1-(N)x-Z 3′ (antisense strand) 3′ Z′-N2-(N′)y-z″ 5′ (sense strand) wherein each of N2, N and N′ is independently an unmodified or modified nucleotide, or an unconventional moiety; wherein each of (N)x and (N′)y is an oligonucleotide in which each consecutive N or N′ is joined to the adjacent N or N′ by a covalent bond; wherein each of x and y is independently an integer of from 17 to 39; wherein the sequence of (N′)y has complementarity to the sequence of (N)x and (N)x has complementarity to a consecutive sequence in a target mRNA selected from SEQ ID NO:1 and SEQ ID NO:2; wherein N1 is covalently bound to (N)x and is mismatched to SEQ ID NO:1 or to SEQ ID NO:2, wherein N1 is a moiety selected from the group consisting of uridine, modified uridine, ribothymidine, modified ribothymidine, deoxyribothymidine, modified deoxyribothymidine, riboadenine, modified riboadenine, deoxyriboadenine or modified deoxyriboadenine; wherein N1 and N2 form a base pair; wherein each of Z and Z′ is independently present or absent, but if present is independently 1-5 consecutive nucleotides or non-nucleotide moieties or a combination thereof covalently attached at the 3′ terminus of the strand in which it is present; and wherein z″ may be present or absent, but if present is a capping moiety covalently attached at the 5′ terminus of (N′)y.

Molecules covered by the description of Structure A2 are also referred to herein as “18+1” or “18+1 mer”. In some embodiments the N2-(N′)y and N1-(N)x oligonucleotide strands useful in generating dsRNA compounds are presented in Tables A5, A6, A7, A8, B5, B6, B7 or B8. In some embodiments (N)x has complementarity to a consecutive sequence in SEQ ID NO:1 (human TIMP1 mRNA). In some embodiments (N)x includes an antisense oligonucleotide present in any one of Tables A5, A6, A7, and A8. In some embodiments x=y=18 and N1-(N)x includes an antisense oligonucleotide present in any one of Tables A3 or A4. In some embodiments x=y=19 or x=y=20. In certain preferred embodiments x=y=18.

In certain preferred embodiments, the antisense strand of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes a sequence corresponding to any one of the antisense sequences shown on Table A5. In certain preferred embodiments the antisense strand and the strand are selected from the sequence pairs shown in Table A6. In certain preferred embodiments the antisense strand and the strand are active in more than one species (human and at least one other species) and are selected from the sequence pairs shown in Table A6. In certain preferred embodiments the antisense strand and the strand are selected from the sequence pairs shown in Table A7, and preferably in Table A8.

In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in siTIMP1_p1; siTIMP1_p3; siTIMP1_p4; siTIMP1_p5; siTIMP1_p7; siTIMP1_p8; siTIMP1_p9; siTIMP1_p10; siTIMP1_p11; siTIMP1_p12; siTIMP1_p13; siTIMP1_p15; siTIMP1_p18; siTIMP1_p22; siTIMP1_p25; siTIMP1_p26; siTIMP1_p28; siTIMP1_p30; siTIMP1_p32; siTIMP1_p34; siTIMP1_p35; siTIMP1_p36; siTIMP1_p37; siTIMP1_p39; siTIMP1_p40; siTIMP1_p41; siTIMP1_p44; siTIMP1_p46; siTIMP1_p47; siTIMP1_p48; siTIMP1_p50; siTIMP1_p51; siTIMP1_p52; siTIMP1_p53; siTIMP1_p54; siTIMP1_p55; siTIMP1_p56; siTIMP1_p57; siTIMP1_p58; siTIMP1_p59; siTIMP1_p61; siTIMP1_p62; siTIMP1_p63; siTIMP1_p64; siTIMP1_p65; siTIMP1_p66; siTIMP1_p67; siTIMP1_p68; siTIMP1_p69; siTIMP1_p70; siTIMP1_p72; siTIMP1_p74; siTIMP1_p75; siTIMP1_p76; siTIMP1_p80; siTIMP1_p81; siTIMP1_p82; siTIMP1_p83; siTIMP1_p84; siTIMP1_p86; siTIMP1_p87; siTIMP1_p88; siTIMP1_p90; siTIMP1_p92; siTIMP1_p93; siTIMP1_p94; siTIMP1_p95; siTIMP1_p97; siTIMP1_p100; siTIMP1_p101; siTIMP1_p102; siTIMP1_p103; siTIMP1_p104; siTIMP1_p105; siTIMP1_p106; siTIMP1_p109; siTIMP1_p110; siTIMP1_p111; siTIMP1_p112; siTIMP1_p113 and siTIMP1_p114, shown in Table A7, infra.

In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in siTIMP1_p1 (SEQ ID NOS:845 and 926); siTIMP1_p4 (SEQ ID NOS:847 and 928; siTIMP1_p5 (SEQ ID NOS:848 and 929); siTIMP1_p7 (SEQ ID NOS:849 and 930); siTIMP1_p8 (SEQ ID NOS:850 and 931); siTIMP1_p9 (SEQ ID NOS:850 and 931); siTIMP1_p10 (SEQ ID NOS:852 and 933); siTIMP1_p11 (SEQ ID NOS:853 and 934); siTIMP1_p12 (SEQ ID NOS:854 and 935); siTIMP1_p13 (SEQ ID NOS:855 and 936); siTIMP1_p15 (SEQ ID NOS:856 and 937); siTIMP1_p18 (SEQ ID NOS:857 and 938); siTIMP1_p22 (SEQ ID NOS:858 and 939); siTIMP1_p26 (SEQ ID NOS:860 and 941); siTIMP1_p36 (SEQ ID NOS:866 and 947); siTIMP1_p37 (SEQ ID NOS:867 and 948); siTIMP1_p39 (SEQ ID NOS:868 and 949); siTIMP1_p40 (SEQ ID NOS:869 and 950); siTIMP1_p41 (SEQ ID NOS:870 and 951); siTIMP1_p44 (SEQ ID NOS:871 and 952); siTIMP1_p47 (SEQ ID NOS:873 and 954); siTIMP1_p48 (SEQ ID NOS:874 and 955); siTIMP1_p50 (SEQ ID NOS:875 and 956); siTIMP1_p51 (SEQ ID NOS:876 and 957); siTIMP1_p52 (SEQ ID NOS:877 and 958); siTIMP1_p55 (SEQ ID NOS:880 and 961); siTIMP1_p56 (SEQ ID NOS:881 and 962); siTIMP1_p58 (SEQ ID NOS:883 and 964); siTIMP1_p61 (SEQ ID NOS:885 and 966); siTIMP1_p64 (SEQ ID NOS:888 and 969); siTIMP1_p66 (SEQ ID NOS:890 and 971); siTIMP1_p68 (SEQ ID NOS:892 and 973); siTIMP1_p70 (SEQ ID NOS:894 and 975); siTIMP1_p75 (SEQ ID NOS:897 and 978); siTIMP1_p83 (SEQ ID NOS:902 and 983); siTIMP1_p86 (SEQ ID NOS:904 and 985); siTIMP1_p88 (SEQ ID NOS:906 and 987); siTIMP1_p92 (SEQ ID NOS:908 and 989); siTIMP1_p93 (SEQ ID NOS:909 and 990); siTIMP1_p95 (SEQ ID NOS:911 and 992); siTIMP1_p97 (SEQ ID NOS:912 and 993); siTIMP1_p102 (SEQ ID NOS:915 and 996); siTIMP1_p104 (SEQ ID NOS:917 and 998); siTIMP1_p105 (SEQ ID NOS:918 and 999); siTIMP1_p106 (SEQ ID NOS:919 and 1000); siTIMP1_p110 (SEQ ID NOS:921 and 1002) and siTIMP1_p112 (SEQ ID NOS:923 and 1004), shown in Table A8, infra.

In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p1 (SEQ ID NOS:845 and 926). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p4 (SEQ ID NOS:847 and 928. In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p5 (SEQ ID NOS:848 and 929). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p7 (SEQ ID NOS:849 and 930). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p8 (SEQ ID NOS:850 and 931). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p9 (SEQ ID NOS:850 and 931). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p10 (SEQ ID NOS:852 and 933). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p11 (SEQ ID NOS:853 and 934). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p12 (SEQ ID NOS:854 and 935). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p13 (SEQ ID NOS:855 and 936). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p15 (SEQ ID NOS:856 and 937). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p18 (SEQ ID NOS:857 and 938). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p22 (SEQ ID NOS:858 and 939). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p26 (SEQ ID NOS:860 and 941). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p36 (SEQ ID NOS:866 and 947). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p37 (SEQ ID NOS:867 and 948). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p39 (SEQ ID NOS:868 and 949). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p40 (SEQ ID NOS:869 and 950). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p41 (SEQ ID NOS:870 and 951). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p44 (SEQ ID NOS:871 and 952). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p47 (SEQ ID NOS:873 and 954). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p48 (SEQ ID NOS:874 and 955). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p50 (SEQ ID NOS:875 and 956). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p51 (SEQ ID NOS:876 and 957). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p52 (SEQ ID NOS:877 and 958). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p55 (SEQ ID NOS:880 and 961). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p56 (SEQ ID NOS:881 and 962). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p58 (SEQ ID NOS:883 and 964). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p61 (SEQ ID NOS:885 and 966). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p64 (SEQ ID NOS:888 and 969). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p66 (SEQ ID NOS:890 and 971). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p68 (SEQ ID NOS:892 and 973). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p70 (SEQ ID NOS:894 and 975). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p75 (SEQ ID NOS:897 and 978). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p83 (SEQ ID NOS:902 and 983). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p86 (SEQ ID NOS:904 and 985). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p88 (SEQ ID NOS:906 and 987). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p92 (SEQ ID NOS:908 and 989). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p93 (SEQ ID NOS:909 and 990). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p95 (SEQ ID NOS:911 and 992). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p97 (SEQ ID NOS:912 and 993). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p102 (SEQ ID NOS:915 and 996). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p104 (SEQ ID NOS:917 and 998). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p105 (SEQ ID NOS:918 and 999). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p106 (SEQ ID NOS:919 and 1000). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p110 (SEQ ID NOS:921 and 1002). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP1_p112 (SEQ ID NOS:923 and 1004).

In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p1 (SEQ ID NOS:845 and 926). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p4 (SEQ ID NOS:847 and 928. In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p5 (SEQ ID NOS:848 and 929). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p7 (SEQ ID NOS:849 and 930). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p9 (SEQ ID NOS:850 and 931). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p10 (SEQ ID NOS:852 and 933). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p11 (SEQ ID NOS:853 and 934). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p12 (SEQ ID NOS:854 and 935). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p13 (SEQ ID NOS:855 and 936). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p15 (SEQ ID NOS:856 and 937). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p18 (SEQ ID NOS:857 and 938). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p44 (SEQ ID NOS:871 and 952). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p48 (SEQ ID NOS:874 and 955). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p51 (SEQ ID NOS:876 and 957). In some preferred embodiments the nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the antisense strand and the sense strand of a sequence pair set forth in siTIMP1_p52 (SEQ ID NOS:877 and 958).

In some embodiments (N)x has complementarity to a consecutive sequence in SEQ ID NO:2 (human TIMP2 mRNA). In some embodiments (N)x includes an antisense oligonucleotide present in any one of Tables B5, B6, B7, and B8. In some embodiments x=y=18 and N1-(N)x includes an antisense oligonucleotide present in any one of Tables B3 or B4. In some embodiments x=y=19 or x=y=20. In certain preferred embodiments x=y=18.

In certain preferred embodiments, the antisense strand of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes a sequence corresponding to any one of the antisense sequences shown on Table B5. In certain preferred embodiments the antisense strand and the strand are selected from the sequence pairs shown in Table B6. In certain preferred embodiments the antisense strand and the strand are active in more than one species (human and at least one other species) and are selected from the sequence pairs shown in Table B6. In certain preferred embodiments the antisense strand and the strand are selected from the sequence pairs shown in Table B7, and preferably from Table B8.

In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in siTIMP2_p1; siTIMP2_p2; siTIMP2_p3; siTIMP2_p5; siTIMP2_p6; siTIMP2_p7; siTIMP2_p8; siTIMP2_p9; siTIMP2_p10; siTIMP2_p11; siTIMP2_p12; siTIMP2_p13; siTIMP2_p14; siTIMP2_p15; siTIMP2_p19; siTIMP2_p21; siTIMP2_p22; siTIMP2_p23; siTIMP2_p26; siTIMP2_p28; siTIMP2_p31; siTIMP2_p32; siTIMP2_p34; siTIMP2_p36; siTIMP2_p42; siTIMP2_p43; siTIMP2_p45; siTIMP2_p47; siTIMP2_p48; siTIMP2_p49; siTIMP2_p50; siTIMP2_p52; siTIMP2_p53; siTIMP2_p54; siTIMP2_p56; siTIMP2_p57; siTIMP2_p58; siTIMP2_p59; siTIMP2_p60; siTIMP2_p63; siTIMP2_p66; siTIMP2_p70; siTIMP2_p72; siTIMP2_p73; siTIMP2_p74; siTIMP2_p77; siTIMP2_p80 and siTIMP2_p81, shown in Table B7, infra.

In some embodiments the antisense and sense strands are selected from the sequence pairs set forth in siTIMP2_p6 (SEQ ID NOS:4771 and 4819); siTIMP2_p9 (SEQ ID NOS:4774 and 4822); siTIMP2_p15 (SEQ ID NOS:4780 and 4828); siTIMP2_p19 (SEQ ID NOS:4781 and 4829); siTIMP2_p21 (SEQ ID NOS:4782 and 4830); siTIMP2_p22 (SEQ ID NOS:4783 and 4831); siTIMP2_p23 (SEQ ID NOS:4784 and 4832); siTIMP2_p28 (SEQ ID NOS:4786 and 4834); siTIMP2_p31 (SEQ ID NOS:4787 and 4835); siTIMP2_p36 (SEQ ID NOS:4790 and 4838); siTIMP2_p42 (SEQ ID NOS:4791 and 4839); siTIMP2_p47 (SEQ ID NOS:4794 and 4842); siTIMP2_p50 (SEQ ID NOS:4797 and 4845); siTIMP2_p56 (SEQ ID NOS:4801 and 4849); siTIMP2_p57 (SEQ ID NOS:4802 and 4850); siTIMP2_p58 (SEQ ID NOS:4803 and 4851); siTIMP2_p60 (SEQ ID NOS:4805 and 4853); siTIMP2_p63 (SEQ ID NOS:4806 and 4854); siTIMP2_p70 (SEQ ID NOS:4808 and 4856); siTIMP2_p73 (SEQ ID NOS:4810 and 4858); siTIMP2_p74 (SEQ ID NOS:4811 and 4859); and siTIMP2_p81 (SEQ ID NOS:4814 and 4862), shown in Table B8, infra.

In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p6 (SEQ ID NOS:4771 and 4819). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p9 (SEQ ID NOS:4774 and 4822). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p15 (SEQ ID NOS:4780 and 4828). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p19 (SEQ ID NOS:4781 and 4829). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p21 (SEQ ID NOS:4782 and 4830). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p22 (SEQ ID NOS:4783 and 4831). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p23 (SEQ ID NOS:4784 and 4832). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p28 (SEQ ID NOS:4786 and 4834). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p31 (SEQ ID NOS:4787 and 4835). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p36 (SEQ ID NOS:4790 and 4838). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p42 (SEQ ID NOS:4791 and 4839). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p47 (SEQ ID NOS:4794 and 4842). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p50 (SEQ ID NOS:4797 and 4845). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p56 (SEQ ID NOS:4801 and 4849). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p57 (SEQ ID NOS:4802 and 4850). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p58 (SEQ ID NOS:4803 and 4851). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p60 (SEQ ID NOS:4805 and 4853). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p63 (SEQ ID NOS:4806 and 4854); siTIMP2_p70 (SEQ ID NOS:4808 and 4856). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p73 (SEQ ID NOS:4810 and 4858). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p74 (SEQ ID NOS:4811 and 4859). In some embodiments the antisense and sense strands of a nucleic acid molecule (e.g., a siNA molecule) as disclosed herein includes the sequence pairs set forth in siTIMP2_p81 (SEQ ID NOS:4814 and 4862).

In some embodiments N1 and N2 form a Watson-Crick base pair. In other embodiments N1 and N2 form a non-Watson-Crick base pair. In some embodiments N1 is a modified riboadenosine or a modified ribouridine.

In certain embodiments N1 is selected from the group consisting of riboadenosine, modified riboadenosine, deoxyriboadenosine, modified deoxyriboadenosine. In other embodiments N1 is selected from the group consisting of ribouridine, deoxyribouridine, modified ribouridine, and modified deoxyribouridine.

In certain embodiments N1 is selected from the group consisting of riboadenosine, modified riboadenosine, deoxyriboadenosine, modified deoxyriboadenosine and N2 is selected from the group consisting of ribouridine, deoxyribouridine, modified ribouridine, and modified deoxyribouridine. In certain embodiments N1 is selected from the group consisting of riboadenosine and modified riboadenosine and N2 is selected from the group consisting of ribouridine and modified ribouridine.

In certain embodiments N2 is selected from the group consisting of riboadenosine, modified riboadenosine, deoxyriboadenosine, modified deoxyriboadenosine and N1 is selected from the group consisting of ribouridine, deoxyribouridine, modified ribouridine, and modified deoxyribouridine. In certain embodiments N1 is selected from the group consisting of ribouridine and modified ribouridine and N2 is selected from the group consisting of riboadenine and modified riboadenine. In certain embodiments N1 is ribouridine and N2 is riboadenine.

In some embodiments of Structure (A2), N1 includes 2′OMe sugar-modified ribouracil or 2′OMe sugar-modified riboadenosine. In certain embodiments of structure (A), N2 includes a 2′OMe sugar modified ribonucleotide or deoxyribonucleotide.

In some embodiments Z and Z′ are absent. In other embodiments one of Z or Z′ is present.

In some embodiments each of N and N′ is an unmodified nucleotide. In some embodiments at least one of N or N′ includes a chemically modified nucleotide or an unconventional moiety. In some embodiments the unconventional moiety is selected from a mirror nucleotide, an abasic ribose moiety and an abasic deoxyribose moiety. In some embodiments the unconventional moiety is a mirror nucleotide, preferably an L-DNA moiety. In some embodiments at least one of N or N′ includes a 2′ OMe sugar-modified ribonucleotide.

In some embodiments the sequence of (N′)y is fully complementary to the sequence of (N)x. In other embodiments the sequence of (N′)y is substantially complementary to the sequence of (N)x.

In some embodiments (N)x includes an antisense sequence that is fully complementary to about 17 to about 39 consecutive nucleotides in a target mRNA. In other embodiments (N)x includes an antisense that is substantially complementary to about 17 to about 39 consecutive nucleotides in a target mRNA. In some embodiments (N)x includes an antisense that is substantially complementary to about 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, to about 39 consecutive nucleotides in a target mRNA. In other embodiments (N)x includes an antisense that is substantially complementary to about 17 to about 23, 18 to about 23, 18 to about 21, or 18 to about 19 consecutive nucleotides in a target mRNA.

In some embodiments of Structure A1 and Structure A2 the compound is blunt ended, for example wherein both Z and Z′ are absent. In an alternative embodiment, at least one of Z or Z′ is present. Z and Z′ independently include one or more covalently linked modified and or unmodified nucleotides, including deoxyribonucleotides and ribonucleotides, or an unconventional moiety for example inverted abasic deoxyribose moiety or abasic ribose moiety; a non-nucleotide C3, C4 or C5 moiety, an amino-6 moiety, a mirror nucleotide and the like. In some embodiments each of Z and Z′ independently includes a C3 moiety or an amino-C6 moiety. In some embodiments Z′ is absent and Z is present and includes a non-nucleotide C3 moiety. In some embodiments Z is absent and Z′ is present and includes a non-nucleotide C3 moiety.

In some preferred embodiments of Structures A1 and Structure A2 an asymmetrical siNA compound molecule has a 3′ terminal non-nucleotide overhang (for example C3-C3 3′-overhang) on one side of a duplex occurring on the antisense strand; and a blunt end on the other side of the molecule. In some preferred embodiments z′ is present and the dsNA molecule has a 5′ terminal non-nucleotide overhang (for example an abasic moiety) on one side of a duplex occurring on the sense strand; and a blunt end on the other side of the molecule.

In some embodiments of Structure A1 and Structure A2 each N consists of an unmodified ribonucleotide. In some embodiments of Structure A1 and Structure A2 each N′ consists of an unmodified nucleotide. In preferred embodiments, at least one of N and N′ is a modified ribonucleotide or an unconventional moiety.

In other embodiments the compound of Structure A1 or Structure A2 includes at least one ribonucleotide modified in the sugar residue. In some embodiments the compound includes a modification at the 2′ position of the sugar residue. In some embodiments the modification in the 2′ position includes the presence of an amino, a fluoro, an alkoxy or an alkyl moiety. In certain embodiments the 2′ modification includes an alkoxy moiety. In preferred embodiments the alkoxy moiety is a methoxy moiety (also known as 2′-O-methyl; 2′OMe; 2′-OCH3). In some embodiments the nucleic acid compound includes 2′OMe sugar modified alternating ribonucleotides in one or both of the antisense and the sense strands. In other embodiments the compound includes 2′OMe sugar modified ribonucleotides in the antisense strand, (N)x or N1-(N)x, only. In certain embodiments the middle ribonucleotide of the antisense strand; e.g. ribonucleotide in position 10 in a 19-mer strand is unmodified. In various embodiments the nucleic acid compound includes at least 5 alternating 2′OMe sugar modified and unmodified ribonucleotides.

In additional embodiments the compound of Structure A1 or Structure A2 includes modified ribonucleotides in alternating positions wherein each ribonucleotide at the 5′ and 3′ termini of (N)x or N1-(N)x are modified in their sugar residues, and each ribonucleotide at the 5′ and 3′ termini of (N′)y or N2-(N)y are unmodified in their sugar residues.

In some embodiments, (N)x or N1-(N)x includes 2′OMe modified ribonucleotides at positions 2, 4, 6, 8, 11, 13, 15, 17 and 19. In other embodiments (N)x (N)x or N1-(N)x includes 2′OMe modified ribonucleotides at positions 1, 3, 5, 7, 9, 11, 13, 15, 17 and 19. In some embodiments (N)x or N1-(N)x includes 2′OMe modified pyrimidines. In some embodiments all the pyrimidine nucleotides in (N)x or N1-(N)x are 2′OMe modified. In some embodiments (N′)y or N2-(N′)y includes 2′OMe modified pyrimidines.

In additional embodiments the compound of Structure A1 or Structure A2 includes modified ribonucleotides in alternating positions wherein each ribonucleotide at the 5′ and 3′ termini of (N)x or N1-(N)x are modified in their sugar residues, and each ribonucleotide at the 5′ and 3′ termini of (N′)y or N2-(N)y are unmodified in their sugar residues.

In some embodiments of Structure A1 and Structure A2, neither of the sense strand nor the antisense strand is phosphorylated at the 3′ and 5′ termini. In other embodiments one or both of the sense strand or the antisense strand are phosphorylated at the 3′ termini.

In some embodiments of Structure A1 and Structure A2 (N)y includes at least one unconventional moiety selected from a mirror nucleotide and a nucleotide joined to an adjacent nucleotide by a 2′-5′ internucleotide phosphate bond also known as 2′-5′ linked or 2′-5′ linkage. In some embodiments the unconventional moiety is a mirror nucleotide. In various embodiments the mirror nucleotide is selected from an L-ribonucleotide (L-RNA) and an L-deoxyribonucleotide (L-DNA). In preferred embodiments the mirror nucleotide is L-DNA.

In some embodiments of Structure A1 (N′)y includes at least one L-DNA moiety. In some embodiments x=y=19 and (N′)y, consists of unmodified ribonucleotides at positions 1-17 and 19 and one L-DNA at the 3′ penultimate position (position 18). In other embodiments x=y=19 and (N′)y consists of unmodified ribonucleotides at position 1-16 and 19 and two consecutive L-DNA at the 3′ penultimate position (positions 17 and 18). In various embodiments the unconventional moiety is a nucleotide joined to an adjacent nucleotide by a 2′-5′ internucleotide phosphate linkage. According to various embodiments (N′)y includes 2, 3, 4, 5, or 6 consecutive ribonucleotides at the 3′ terminus linked by 2′-5′ internucleotide linkages. In one embodiment, four consecutive nucleotides at the 3′ terminus of (N′)y are joined by three 2′-5′ phosphodiester bonds, wherein one or more of the 2′-5′ nucleotides which form the 2′-5′ phosphodiester bonds further includes a 3′-O-methyl (3′OMe) sugar modification. Preferably the 3′ terminal nucleotide of (N′)y includes a 2′OMe sugar modification. In certain embodiments x=y=19 and (N′)y includes two or more consecutive nucleotides at positions 15, 16, 17, 18 and 19 include a nucleotide joined to an adjacent nucleotide by a 2′-5′ internucleotide bond. In various embodiments the nucleotide forming the 2′-5′ internucleotide bond includes a 3′ deoxyribose nucleotide or a 3′ methoxy nucleotide. In some embodiments x=y=19 and (N′)y includes nucleotides joined to the adjacent nucleotide by a 2′-5′ internucleotide bond between positions 15-16, 16-17 and 17-18 or between positions 16-17, 17-18 and 18-19. In some embodiments x=y=19 and (N′)y includes nucleotides joined to the adjacent nucleotide by a 2′-5′ internucleotide bond between positions 16-17 and 17-18 or between positions 17-18 and 18-19 or between positions 15-16 and 17-18. In other embodiments the pyrimidine ribonucleotides (rU, rC) in (N′)y are substituted with nucleotides joined to the adjacent nucleotide by a 2′-5′ internucleotide bond.

In some embodiments of Structure A2, (N)y includes at least one L-DNA moiety. In some embodiments x=y=18 and (N′)y consists of unmodified ribonucleotides at positions 1-16 and 18 and one L-DNA at the 3′ penultimate position (position 17). In other embodiments x=y=18 and (N′)y consists of unmodified ribonucleotides at position 1-15 and 18 and two consecutive L-DNA at the 3′ penultimate position (positions 16 and 17). In various embodiments the unconventional moiety is a nucleotide joined to an adjacent nucleotide by a 2′-5′ internucleotide phosphate linkage. According to various embodiments (N′)y includes 2, 3, 4, 5, or 6 consecutive ribonucleotides at the 3′ terminus linked by 2′-5′ internucleotide linkages. In one embodiment, four consecutive nucleotides at the 3′ terminus of (N′)y are joined by three 2′-5′ phosphodiester bonds, wherein one or more of the 2′-5′ nucleotides which form the 2′-5′ phosphodiester bonds further includes a 3′-O-methyl (3′OMe) sugar modification. Preferably the 3′ terminal nucleotide of (N′)y includes a 2′OMe sugar modification. In certain embodiments x=y=18 and in (N′)y two or more consecutive nucleotides at positions 14, 15, 16, 17, and 18 include a nucleotide joined to an adjacent nucleotide by a 2′-5′ internucleotide bond. In various embodiments the nucleotide forming the 2′-5′ internucleotide bond includes a 3′ deoxyribose nucleotide or a 3′ methoxy nucleotide. In some embodiments x=y=18 and (N′)y includes nucleotides joined to the adjacent nucleotide by a 2′-5′ internucleotide bond between positions 15-16, 16-17 and 17-18 or between positions 16-17 and 17-18. In some embodiments x=y=18 and (N′)y includes nucleotides joined to the adjacent nucleotide by a 2′-5′ internucleotide bond between positions 14-15, 15-16, 16-17, and 17-18 or between positions 15-16, 16-17, and 17-18 or between positions 16-17 and 17-18 or between positions 17-18 or between positions 15-16 and 17-18. In other embodiments the pyrimidine ribonucleotides (rU, rC) in (N′)y are substituted with nucleotides joined to the adjacent nucleotide by a 2′-5′ internucleotide bond.

In some embodiments, x=y=19 and (N′)y comprises five consecutive nucleotides at the 3′ terminus joined by four 2′-5′ linkages, specifically the linkages between the nucleotides position 15-16, 16-17, 17-18 and 18-19.

In some embodiments the internucleotide linkages include phosphodiester bonds. In some embodiments x=y=19 and (N′)y comprises five consecutive nucleotides at the 3′ terminus joined by four 2′-5′ linkages and optionally further includes Z′ and z′ independently selected from an inverted abasic moiety and a C3 alkyl [C3; 1,3-propanediol mono(dihydrogen phosphate)] cap.

In some embodiments x=y=19 and (N′)y comprises an L-DNA position 18; and (N′)y optionally further includes Z′ and z′ independently selected from an inverted abasic moiety and a C3 alkyl [C3; 1,3-propanediol mono(dihydrogen phosphate)] cap.

In some embodiments (N′)y comprises a 3′ terminal phosphate. In some embodiments (N′)y comprises a 3′ terminal hydroxyl.

In some embodiments x=y=19 and (N)x includes 2′OMe sugar modified ribonucleotides at positions 1, 3, 5, 7, 9, 11, 13, 15, 17, 19 or at positions 2, 4, 6, 8, 11, 13, 15, 17, 19. In some embodiments x=y=19 and (N)x includes 2′OMe sugar modified pyrimidines. In some embodiments all pyrimidines in (N)x include the 2′OMe sugar modification.

In some embodiments x=y=18 and N2 is a riboadenine moiety.

In some embodiments in x=y=18, and N2-(N′)y comprises five consecutive nucleotides at the 3′ terminus joined by four 2′-5′ linkages, specifically the linkages between the nucleotides position 15-16, 16-17, 17-18 and 18-19. In some embodiments the linkages include phosphodiester bonds.

In some embodiments x=y=18 and N2-(N′)y comprises five consecutive nucleotides at the 3′ terminus joined by four 2′-5′ linkages and optionally further includes Z′ and z′ independently selected from an inverted abasic moiety and a C3 alkyl [C3; 1,3-propanediol mono(dihydrogen phosphate)] cap.

In some embodiments x=y=18 and N2-(N′)y comprises an L-DNA position 18; and (N′)y optionally further includes Z′ and z′ independently selected from an inverted abasic moiety and a C3 alkyl [C3; 1,3-propanediol mono(dihydrogen phosphate)] cap.

In some embodiments N2-(N′)y comprises a 3′ terminal phosphate. In some embodiments N2-(N′)y comprises a 3′ terminal hydroxyl.

In some embodiments x=y=18 and N1-(N)x includes 2′OMe sugar modified ribonucleotides at positions 1, 3, 5, 7, 9, 11, 13, 15, 17, 19 or at positions 2, 4, 6, 8, 11, 13, 15, 17, 19.

In some embodiments x=y=18 and N1-(N)x includes 2′OMe sugar modified pyrimidines. In some embodiments all pyrimidines in (N)x include the 2′OMe sugar modification. In some embodiments N1-(N)x further comprises an L-DNA at position 6 or 7 (5′>3′). In other embodiments N1-(N)x further comprises a ribonucleotide which generates a 2′5′ internucleotide linkage in between the ribonucleotides at positions 5-6 or 6-7 (5′>3′)

In additional embodiments N1-(N)x further includes Z wherein Z comprises a non-nucleotide overhang. In some embodiments the non-nucleotide overhang is C3-C3 [1,3-propanediol mono(dihydrogen phosphate)]2.

In some embodiments the double stranded molecules disclosed herein, in particular molecules set forth in Tables A3, A4, A7, A8 and B3, B4, B7 and B8, include one or more of the following modifications:

-   -   a) N in at least one of positions 5, 6, 7, 8, or 9 from the 5′         terminus of the antisense strand is selected from a DNA, TNA, a         2′5′ nucleotide or a mirror nucleotide;     -   b) N′ in at least one of positions 9 or 10 from the 5′ terminus         of the sense strand is selected from a TNA, 2′5′ nucleotide and         a pseudoUridine;     -   c) N′ in 4, 5, or 6 consecutive positions at the 3′ terminus         positions of (N′)y comprises a 2′5′ nucleotide;     -   d) one or more pyrimidine ribonucleotides are 2′ modified in the         sense strand, the antisense strand or both the sense strand and         the antisense strand.

In some embodiments the double stranded molecules in particular molecules set forth in Tables A3, A4, A7, A8 and B3, B4, B7 and B8 include a combination of the following modifications

-   -   a) the antisense strand includes a DNA, TNA, a 2′5′ nucleotide         or a mirror nucleotide in at least one of positions 5, 6, 7, 8,         or 9 from the 5′ terminus;     -   b) the sense strand includes at least one of a TNA, a 2′5′         nucleotide and a pseudoUridine in positions 9 or 10 from the 5′         terminus; and     -   c) one or more pyrimidine ribonucleotides are 2′ modified in the         sense strand, the antisense strand or both the sense strand and         the antisense strand.

In some embodiments the double stranded molecules in particular molecules set forth in Tables A3, A4, A7, A8 and B3, B4, B7 and B8 include a combination of the following modifications

-   -   a) the antisense strand includes a DNA, 2′5′ nucleotide or a         mirror nucleotide in at least one of positions 5, 6, 7, 8, or 9         from the 5′ terminus;     -   b) the sense strand includes 4, 5, or 6 consecutive 2′5′         nucleotides at the 3′ penultimate or 3′ terminal positions; and     -   c) one or more pyrimidine ribonucleotides are 2′ modified in the         sense strand, the antisense strand or both the sense strand and         the antisense strand.

In some embodiments of Structure A1 and/or Structure A2 (N)y includes at least one unconventional moiety selected from a mirror nucleotide, a 2′5′ nucleotide and a TNA. In some embodiments the unconventional moiety is a mirror nucleotide. In various embodiments the mirror nucleotide is selected from an L-ribonucleotide (L-RNA) and an L-deoxyribonucleotide (L-DNA). In preferred embodiments the mirror nucleotide is L-DNA. In certain embodiments the sense strand comprises an unconventional moiety in position 9 or 10 (from the 5′ terminus). In preferred embodiments the sense strand includes an unconventional moiety in position 9 (from the 5′ terminus). In some embodiments the sense strand is 19 nucleotides in length and comprises 4, 5, or 6 consecutive unconventional moieties in positions 15, (from the 5′ terminus). In some embodiments the sense strand includes 4 consecutive 2′5′ ribonucleotides in positions 15, 16, 17, and 18. In some embodiments the sense strand includes 5 consecutive 2′5′ ribonucleotides in positions 15, 16, 17, 18 and 19. In various embodiments the sense strand further comprises Z′. In some embodiments Z′ includes a C3OH moiety or a C3Pi moiety.

In some embodiments of Structure A1 and/or Structure A2 (N)y comprises at least one unconventional moiety selected from a mirror nucleotide and a nucleotide joined to an adjacent nucleotide by a 2′-5′ internucleotide phosphate bond. In some embodiments the unconventional moiety is a mirror nucleotide. In various embodiments the mirror nucleotide is selected from an L-ribonucleotide (L-RNA) and an L-deoxyribonucleotide (L-DNA). In preferred embodiments the mirror nucleotide is L-DNA.

In some embodiments of Structure A1 (N′)y comprises at least one L-DNA moiety. In some embodiments x=y=19 and (N′)y consists of unmodified ribonucleotides at positions 1-17 and 19 and one L-DNA at the 3′ penultimate position (position 18). In other embodiments x=y=19 and (N′)y consists of unmodified ribonucleotides at position 1-16 and 19 and two consecutive L-DNA at the 3′ penultimate position (positions 17 and 18). In various embodiments the unconventional moiety is a nucleotide joined to an adjacent nucleotide by a 2′-5′ internucleotide phosphate linkage. According to various embodiments (N′)y comprises 2, 3, 4, 5, or 6 consecutive ribonucleotides at the 3′ terminus linked by 2′-5′ internucleotide linkages. In one embodiment, four consecutive nucleotides at the 3′ terminus of (N′)y are joined by three 2′-5′ phosphodiester bonds. In one embodiment, five consecutive nucleotides at the 3′ terminus of (N′)y are joined by four 2′-5′ phosphodiester bonds. In some embodiments, wherein one or more of the 2′-5′ nucleotides form a 2′-5′ phosphodiester bonds the nucleotide further comprises a 3′-O-methyl (3′OMe) sugar modification. In some embodiments the 3′ terminal nucleotide of (N′)y comprises a 3′OMe sugar modification. In certain embodiments x=y=19 and (N′)y comprises two or more consecutive nucleotides at positions 15, 16, 17, 18 and 19 comprise a nucleotide joined to an adjacent nucleotide by a 2′-5′ internucleotide bond. In various embodiments the nucleotide forming the 2′-5′ internucleotide bond comprises a 3′ deoxyribose nucleotide or a 3′ methoxy nucleotide. In some embodiments x=y=19 and (N′)y comprises nucleotides joined to the adjacent nucleotide by a 2′-5′ internucleotide bond between positions 15-16, 16-17 and 17-18 or between positions 16-17, 17-18 and 18-19. In some embodiments x=y=19 and (N′)y comprises nucleotides joined to the adjacent nucleotide by a 2′-5′ internucleotide bond between positions 16-17 and 17-18 or between positions 17-18 and 18-19 or between positions 15-16 and 17-18. In other embodiments the pyrimidine ribonucleotides (rU, rC) in (N′)y are substituted with nucleotides joined to the adjacent nucleotide by a 2′-5′ internucleotide bond.

In some embodiments of Structure A2 (N)y comprises at least one L-DNA moiety. In some embodiments x=y=18 and N2-(N′)y, consists of unmodified ribonucleotides at positions 1-17 and 19 and one L-DNA at the 3′ penultimate position (position 18). In other embodiments x=y=18 and N2-(N′)y consists of unmodified ribonucleotides at position 1-16 and 19 and two consecutive L-DNA at the 3′ penultimate position (positions 17 and 18). In various embodiments the unconventional moiety is a nucleotide joined to an adjacent nucleotide by a 2′-5′ internucleotide phosphate linkage. According to various embodiments N2-(N′)y comprises 2, 3, 4, 5, or 6 consecutive ribonucleotides at the 3′ terminus linked by 2′-5′ internucleotide linkages. In one embodiment, four consecutive nucleotides at the 3′ terminus of N2-(N′)y are joined by three 2′-5′ phosphodiester bonds, wherein one or more of the 2′-5′ nucleotides which form the 2′-5′ phosphodiester bonds further comprises a 3′-O-methyl (3′OMe) sugar modification. In some embodiments the 3′ terminal nucleotide of N2-(N′)y comprises a 2′OMe sugar modification. In certain embodiments x=y=18 and N2-(N′)y comprises two or more consecutive nucleotides at positions 15, 16, 17, 18 and 19 comprise a nucleotide joined to an adjacent nucleotide by a 2′-5′ internucleotide bond. In various embodiments the nucleotide forming the 2′-5′ internucleotide bond comprises a 3′ deoxyribose nucleotide or a 3′ methoxy nucleotide. In some embodiments x=y=18 and N2-(N′)y comprises nucleotides joined to the adjacent nucleotide by a 2′-5′ internucleotide bond between positions 16-17 and 17-18 or between positions 17-18 and 18-19 or between positions 15-16 and 17-18. In other embodiments the pyrimidine ribonucleotides (rU, rC) in (N′)y comprise nucleotides joined to the adjacent nucleotide by a 2′-5′ internucleotide bond.

In further embodiments of Structures A1 and A2 (N′)y comprises 1-8 modified ribonucleotides wherein the modified ribonucleotide is a deoxyribose (DNA) nucleotide. In certain embodiments (N′)y comprises 1, 2, 3, 4, 5, 6, 7, or up to 8 DNA moieties. In further embodiments of Structures A1 and A2 (N′)y includes 1-8 modified ribonucleotides wherein the modified ribonucleotide is a DNA nucleotide. In certain embodiments (N′)y includes 1, 2, 3, 4, 5, 6, 7, or up to 8 DNA moieties.

In some embodiments either Z or Z′ is present and independently includes two non-nucleotide moieties.

In additional embodiments Z and Z′ are present and each independently includes two non-nucleotide moieties.

In some embodiments each of Z and Z′ includes an abasic moiety, for example a deoxyriboabasic moiety (referred to herein as “dAb”) or riboabasic moiety (referred to herein as “rAb”). In some embodiments each of Z and/or Z′ includes two covalently linked abasic moieties and is for example dAb-dAb or rAb-rAb or dAb-rAb or rAb-dAb, wherein each moiety is covalently attached to an adjacent moiety, preferably via a phospho-based bond. In some embodiments the phospho-based bond includes a phosphorothioate, a phosphonoacetate or a phosphodiester bond. In preferred embodiments the phospho-based bond includes a phosphodiester bond.

In some embodiments each of Z and/or Z′ independently includes an alkyl moiety, optionally propane [(CH2)3] moiety (C3) or a derivative thereof including propanol (C3-OH) and phospho derivative of propanediol (“C3-3′Pi”). In some embodiments each of Z and/or Z′ includes two alkyl moieties and in some examples is C3-C3-OH. The 3′ terminus of the antisense strand and/or the 3′ terminus of the sense strand is covalently attached to a C3 moiety via a phospho-based bond and the C3 moiety is covalently conjugated a C3-OH moiety via a phospho-based bond. In some embodiments the phospho-based bonds include a phosphorothioate, a phosphonoacetate or a phosphodiester bond. In preferred embodiments the phospho-based bond includes a phosphodiester bond.

In one specific embodiment of Structure A1 or Structure A2, Z includes C3-C3-OH (a propyl moiety covalently linked to a propanol moiety via a phosphodiester bond). In some embodiments Z includes a propanol moiety covalently attached to the 3′ terminus of the antisense strand via a phosphodiester bond. In some embodiments the C3-C3-OH overhang is covalently attached to the 3′ terminus of (N)x or (N′)y via covalent linkage, for example a phosphodiester linkage. In some embodiments the linkage between a first C3 and a second C3 is a phosphodiester linkage.

In various embodiments the alkyl moiety is a C3 alkyl (“C3”) to C6 alkyl (“C6”) (e.g. C3, C4, C5 or C6) moiety including a terminal hydroxyl, a terminal amino, terminal phosphate group.

In some embodiments the alkyl moiety is a C3 alkyl moiety. In some embodiments the C3 alkyl moiety includes propanol, propylphosphate, propylphosphorothioate or a combination thereof.

The C3 alkyl moiety may be covalently linked to the 3′ terminus of (N′)y and or the 3′ terminus of (N)x via a phosphodiester bond. In some embodiments the alkyl moiety includes propanol, propyl phosphate (trimethyl phosphate) or propyl phosphorothioate (trimethyl phosphorothioate).

In some embodiments each of Z and Z′ is independently selected from propanol, propyl phosphate (trimethyl phosphate), propyl phosphorothioate (trimethyl phosphorothioate), combinations thereof or multiples thereof.

In some embodiments each of Z and Z′ is independently selected from propyl phosphate (trimethyl phosphate), propyl phosphorothioate (trimethyl phosphorothioate), propyl phospho-propanol; propyl phospho-propyl phosphorothioate; propylphospho-propyl phosphate; (propyl phosphate)3, (propyl phosphate)-2-propanol, (propyl phosphate)2-propyl phosphorothioate. Any propane or propanol conjugated moiety can be included in Z or Z′.

In additional embodiments each of Z and/or Z′ includes a combination of an abasic moiety and an unmodified deoxyribonucleotide or ribonucleotide or a combination of a hydrocarbon moiety and an unmodified deoxyribonucleotide or ribonucleotide or a combination of an abasic moiety (deoxyribo or ribo) and a hydrocarbon moiety. In such embodiments, each of Z and/or Z′ includes C3-rAb or C3-dAb wherein each moiety is covalently bond to the adjacent moiety via a phospho-based bond, preferably a phosphodiester, phosphorothioate or phosphonoacetate bond.

In certain embodiments nucleic acid molecules as disclosed herein include a sense oligonucleotide sequence selected from any one of Tables A1-B8.

In some embodiments, provided is a tandem structure and a triple armed structure, also known as RNAstar. Such structures are disclosed in PCT patent publication WO 2007/091269. A tandem oligonucleotide comprises at least two siRNA compounds.

A triple-stranded oligonucleotide may be an oligoribonucleotide having the general structure:

5′ oligo1 (sense) LINKER A Oligo2 (sense) 3′ 3′ oligo1 (antisense) LINKER B Oligo3 (sense) 5′ 3′ oligo3 (antisense) LINKER C oligo2 (antisense) 5′ or 5′ oligo1 (sense) LINKER A Oligo2 (antisense) 3′ 3′ oligo1 (antisense) LINKER B Oligo3 (sense) 5′ 3′ oligo3 (antisense) LINKER C oligo2 (sense) 5′ or 5′ oligo1 (sense) LINKER A oligo3 (antisense) 3′ 3′ oligo1 (antisense) LINKER B oligo2 (sense) 5′ 5′ oligo3 (sense) LINKER C oligo2 (antisense) 3′

wherein one or more of linker A, linker B or linker C is present; any combination of two or more oligonucleotides and one or more of linkers A-C is possible, so long as the polarity of the strands and the general structure of the molecule remains. Further, if two or more of linkers A-C are present, they may be identical or different.

In some embodiments a “gapped” RNAstar compound is preferred wherein the compound consists of four ribonucleotide strands forming three siRNA duplexes having the general structure as follows:

wherein each of oligo A, oligo B, oligo C, oligo D, oligo E and oligo F represents at least 19 consecutive ribonucleotides, wherein from 19 to 40 of such consecutive ribonucleotides, in each of oligo A, B, C, D, E and F comprise a strand of a siRNA duplex, wherein each ribonucleotide may be modified or unmodified; wherein strand 1 comprises oligo A which is either a sense portion or an antisense portion of a first siRNA duplex of the compound, strand 2 comprises oligo B which is complementary to at least 19 nucleotides in oligo A, and oligo A and oligo B together form a first siRNA duplex that targets a first target mRNA; wherein strand 1 further comprises oligo C which is either a sense portion or an antisense strand portion of a second siRNA duplex of the compound, strand 3 comprises oligo D which is complementary to at least 19 nucleotides in oligo C and oligo C and oligo D together form a second siRNA duplex that targets a second target mRNA; wherein strand 4 comprises oligo E which is either a sense portion or an antisense strand portion of a third siRNA duplex of the compound, strand 2 further comprises oligo F which is complementary to at least 19 nucleotides in oligo E and oligo E and oligo F together form a third siRNA duplex that targets a third target mRNA; and wherein linker A is a moiety that covalently links oligo A and oligo C; linker B is a moiety that covalently links oligo B and oligo F, and linker A and linker B can be the same or different.

In some embodiments the first, second and third siRNA duplex target the same gene, In other embodiments two of the first, second or third siRNA duplexes target the same mRNA and the third siRNA duplex targets a different mRNA. In some embodiments each of the first, second and third duplex targets a different mRNA.

In another aspect, provided are methods for reducing the expression of TIMP1 and TIMP2 in a cell by introducing into a cell a nucleic acid molecule as provided herein in an amount sufficient to reduce expression of TIMP1 and TIMP2. In one embodiment, the cell is hepatocellular stellate cell. In another embodiment, the cell is a stellate cell in renal or pulmonary tissue. In certain embodiments, the method is performed in vitro, in other embodiments, the method is performed in vivo.

In yet another aspect, provided are methods for treating an individual suffering from a disease associated with TIMP1 and/or TIMP2. The methods include administering to the individual a nucleic acid molecule such as provided herein in an amount sufficient to reduce expression of TIMP1 or TIMP2. In certain embodiments the disease associated with TIMP1 or TIMP2 is a disease selected from the group consisting of liver fibrosis, cirrhosis, pulmonary fibrosis including lung fibrosis (including ILF), any condition causing kidney fibrosis (e.g., CKD including ESRD), peritoneal fibrosis, chronic hepatic damage, fibrillogenesis, fibrotic diseases in other organs, abnormal scarring (keloids) associated with all possible types of skin injury accidental and jatrogenic (operations); scleroderma; cardiofibrosis, fibrosis in the brain; failure of glaucoma filtering operation; and intestinal adhesions. The compounds are useful in treating organ specific indications including those shown in Table I below:

TABLE I Organ Indication Skin Pathologic scarring as keloid and hypertrophic scar Surgical scarring Injury scarring keloid, or nephrogenic fibrosing dermatopathy Peritoneum Peritoneal fibrosis Adhesions Peritoneal Sclerosis associated with continual ambulatory peritoneal dialysis (CAPD) Liver Cirrhosis including post-hepatitis C cirrhosis, primary biliary cirrhosis Liver fibrosis, e.g. Prevention of Liver Fibrosis in Hepatitis C carriers schistomasomiasis cholangitis Liver cirrhosis due to Hepatitis C post liver transplant or Non-Alcoholic Steatohepatitis (NASH) Pancreas inter(peri)lobular fibrosis (as in alcoholic chronic pancreatitis), periductal fibrosis (as in hereditary pancreatitis), periductal and interlobular fibrosis (as in autoimmune pancreatitis), diffuse inter- and intralobular fibrosis (as in obstructive chronic pancreatitis) Kidney Chronic Kidney Disease (CKD) of any etiology. Treatment of early stage CKD (elevated SCr) in diabetic patients (“prevent” further deterioration in renal function) kidney fibrosis associated with lupus glomeruloschelerosis Diabetic Nephropathy Heart Congestive heart failure, Endomyocardial fibrosis, cardiofibrosis fibrosis associated with myocardial infarction Lung Asthma, Idiopathic pulmonary fibrosis (IPF); Radiation fibrosis, a sequel of radiation pneumonitis (e.g. due to cancer treating radiation) Interstitial lung fibrosis (ILF) Radiation Pneumonitis leading to Pulmonary Fibrosis (e.g. due to cancer treating radiation) Bone marrow Myeloproliferative disorders: Myelofibrosis (MF), Polycythemia vera (PV), Essential thrombocythemia (ET) idiopathic myelofibrosis drug induced myelofibrosis. Eye Anterior segment: Corneal opacification e,g, following inherited dystrophies, herpetic keratitis or pterygia; Glaucoma Posterior segment fibrosis and traction retinal detachment, a complication of advanced diabetic retinopathy (DR); Fibrovascular scarring and gliosis in the retina; Under the retina fibrosis for example subsequent to subretinal hemorrhage associated with neovascular AMD Retro-orbital fibrosis, postcataract surgery, proliferative vitreoretinopathy. Ocular cicatricial pemphigoid Intestine Intestinal fibrosis, Crohn's disease Vocal cord Vocal cord scarring, vocal cord mucosal fibrosis, laryngeal fibrosis Vasculature Atherosclerosis, postangioplasty arterial restenosis Brain Fibrosis associated with brain (cerebral) infarction Multisystemic Scleroderma systemic sclerosis; multifocal fibrosclerosis; sclerodermatous graft-versus-host disease in bone marrow transplant recipients, and nephrogenic systemic fibrosis (exposure to gadolinium-based contrast agents (GBCAs), 30% of MRIs) Malignancies Metastatic and invasive cancer by inhibiting function of activated tumor of various associated myofibroblasts origin

In some embodiments the preferred indications include, Liver cirrhosis due to Hepatitis C post liver transplant; Liver cirrhosis due to Non-Alcoholic Steatohepatitis (NASH); Idiopathic Pulmonary Fibrosis (IPF); Radiation Pneumonitis leading to Pulmonary Fibrosis; Diabetic Nephropathy; Peritoneal Sclerosis associated with continual ambulatory peritoneal dialysis (CAPD) and Ocular cicatricial pemphigoid.

Fibrotic Liver indications include Alcoholic Cirrhosis, Hepatitis B cirrhosis, Hepatitis C cirrhosis, Hepatitis C (Hep C) cirrhosis post orthotopic liver transplant (OLTX), NASH/NAFLD wherein NASH is an extreme form of nonalcoholic fatty liver disease (NAFLD), Primary biliary cirrhosis (PBC), Primary sclerosing cholangitis (PSC), Biliary atresia, alpha1 antitrypsin deficiency (A1AD), Copper storage diseases (Wilson's disease), Fructosemia, Galactosemia, Glycogen storage diseases (especially types III, IV, VI, IX, and X), Iron-overload syndromes (hemochromatosis), Lipid abnormalities (e.g., Gaucher's disease). Peroxisomal disorders (eg, Zellweger syndrome), Tyrosinemia, Congenital hepatic fibrosis, Bacterial Infections (eg, brucellosis), Parasitic (eg, echinococcosis), Budd-Chiari syndrome (hepatic veno-occlusive disease).

Pulmonary Indications indications include Idiopathic Pulmonary Fibrosis, Silicosis, Pneumoconiosis, Bronchopulmonary Dysplasia in newborn following neonatal respiratory distress syndrome, Bleomycin/chemotherapeutic induced lung injury, Brochiolitis Obliterans (BOS) post lung transplant, Chronic obstructive pulmonary disorder (COPD), Cystic Fibrosis, Asthma.

Cardiac indications include Cardiomyopathy, Atherosclerosis (Bergers disease, etc), Endomyocardial fibrosis, Atrial Fibrillation, Scarring post Myocardial Infarction (MI).

Other Thoracic indications include Radiation-induced capsule tissue reactions around textured breast implants and Oral submucosal fibrosis.

Renal indications include Autosomal Dominant Polycystic Kidney Disease (ADPKD), Diabetic nephropathy (diabetic glomerulosclerosis), FSGS (collapsing vs. other histologic variants), IgA Nephropathy (Berger Disease), Lupus Nephritis, Wegner's, Scleroderma, Goodpasture Syndrome, tubulointerstitial fibrosis: drug induced (protective) pencillins, cephalosporins, analgesic nephropathy, Membranoproliferative glomerulonephritis (MPGN), Henoch-Schonlein Purpura, Congenital nephropathies: Medullary Cystic Disease, Nail-Patella Syndrome and Alport Syndrome.

Bone Marrow indications include lympangiolyomyositosis (LAM), Chronic graft vs. host disease, Polycythemia vera, Essential thrombocythemia, Myelofibrosis.

Ocular indications include Retinopathy of Prematurity (RoP), Ocular cicatricial pemphigoid, Lacrimal gland fibrosis, Retinal attachment surgery, Corneal opacity, Herpetic keratitis, Pterygia, Glaucoma, Age-related macular degeneration (AMD/ARMD), Retinal fibrosis associated Diabetes mellitus (DM) retinopathy.

Brain indications include fibrosis associated with brain infarction.

Gynecological indications include Endometriosis add on to hormonal therapy for prevention of scarring, post STD fibrosis/salphingitis.

Systemic indications include Dupuytren's disease, palmar fibromatosis, Peyronie's disease, Ledderhose disease, keloids, multifocal fibrosclerosis, nephrogenic systemic fibrosis, nephrogenic myelofibrosis (anemia).

Injury Associated Fibrotic Diseases include Burn (chemical included) induced skin & soft tissue scarring and contraction, Radiation induce skin & organ scarring post cancer therapeutic radiation treatment, Keloid (skin).

Surgical indications include peritoneal fibrosis post peritoneal dialysis catheter, corneal implant, cochlear implant, other implants, silicone implants in breasts, chronic sinusitis; adhesions, pseudointimal hyperplasia of dialysis grafts.

Other indications include Chronic Pancreatitis.

In some embodiments the methods include administering to the individual a nucleic acid molecule such as provided herein in an amount sufficient to reduce expression of TIMP1. In some embodiments the methods include administering to the individual a nucleic acid molecule such as provided herein in an amount sufficient to reduce expression of TIMP2. In some embodiments the methods include administering to the individual nucleic acid molecules such as provided herein in an amount sufficient to reduce expression of TIMP1. In some embodiments the methods include administering to the individual nucleic acid molecules such as provided herein in an amount sufficient to reduce expression of TIMP2. In some embodiments provided is a nucleic acid disclosed herein for the treatment of a fibrotic disease selected from a disease or disorder set forth in Table I. In another embodiment provided is a nucleic acid molecule for use in therapy. In some embodiments therapy comprises treatment of a fibrotic disease or disorder set forth in Table I. In some embodiments provided is use of a nucleic acid molecule disclosed herein for the preparation of a medicament useful in treating a fibrotic disease or disorder set forth in Table I. In some embodiments the nucleic acid molecule is set forth in Table C, e.g. TIMP1-A, TIMP1-B, TIMP1-C. In some embodiments the nucleic acid molecule is set forth in Table D, e.g. TIMP2-A, TIMP2-B, TIMP2-C, TIMP2-D, TIMP2-E. In some embodiments the sense and antisense sequences of the nucleic acid molecule are selected from the sequence pairs set forth in any one of Table A3, Table A4, Table A7 or Table A8. In some embodiments the sense and antisense sequences of the nucleic acid molecule are selected from the sequence pairs set forth in any one of Table B3, Table B4, Table B7 or Table B8.

In one aspect, provided are pharmaceutical compositions that include a nucleic acid molecule (e.g., an siNA molecule) as described herein in a pharmaceutically acceptable carrier. In certain embodiments, the pharmaceutical formulation includes, or involves, a delivery system suitable for delivering nucleic acid molecules (e.g., siNA molecules) to an individual such as a patient; for example delivery systems described in more detail below.

In a related aspect, provided are compositions or kits that include a nucleic acid molecule (e.g., an siNA molecule) packaged for use by a patient. The package may be labeled or include a package label or insert that indicates the content of the package and provides certain information regarding how the nucleic acid molecule (e.g., an siNA molecule) should be or can be used by a patient, for example the label may include dosing information and/or indications for use. In certain embodiments the contents of the label will bear a notice in a form prescribed by a government agency, for example the United States Food and Drug Administration (FDA). In certain embodiments, the label may indicate that the nucleic acid molecule (e.g., an siNA molecule) is suitable for use in treating a patient suffering from a disease associated with TIMP1 or TIMP2; for example, the label may indicate that the nucleic acid molecule (e.g., an siNA molecule) is suitable for use in treating fibroids; or for example the label may indicate that the nucleic acid molecule (e.g., an siNA molecule) is suitable for use in treating a disease selected from the group consisting of fibrosis, liver fibrosis, cirrhosis, pulmonary fibrosis, kidney fibrosis, peritoneal fibrosis, chronic hepatic damage, and fibrillogenesis.

As used herein, the term “tissue inhibitor of metalloproteinases 1” or “TIMP1” are used interchangeably and refer to any tissue inhibitor of metalloproteinases 1 peptide, or polypeptide having any TIMP1 protein activity. Tissue inhibitor of metalloproteinases 1 is a natural inhibitor of matrix metalloproteinases. In certain preferred embodiments, “TIMP1” refers to human TIMP1. Tissue inhibitor of metalloproteinases 1 (or more particularly human TIMP1) may have an amino acid sequence that is the same, or substantially the same, as SEQ ID NO. 3 (FIG. 1C).

As used herein, the term “tissue inhibitor of metalloproteinases 2” or “TIMP2” are used interchangeably and refer to any tissue inhibitor of metalloproteinases 2 peptide, or polypeptide having any TIMP2 protein activity. Tissue inhibitor of metalloproteinases 2 (or more particularly human TIMP2) may have an amino acid sequence that is the same, or substantially the same, as SEQ ID NO. 4 (FIG. 1D).

As used herein the term “nucleotide sequence encoding TIMP1 and TIMP2” means a nucleotide sequence that codes for a TIMP1 and TIMP2 protein or portion thereof. The term “nucleotide sequence encoding TIMP1 and TIMP2” is also meant to include TIMP1 and TIMP2 coding sequences such as TIMP1 and TIMP2 isoforms, mutant TIMP1 and TIMP2 genes, splice variants of TIMP1 and TIMP2 genes, and TIMP1 and TIMP2 gene polymorphisms. A nucleic acid sequence encoding TIMP1 and TIMP2 includes mRNA sequences encoding TIMP1 and TIMP2, which can also be referred to as “TIMP1 and TIMP2 mRNA.” Exemplary sequences of human TIMP1 mRNA and TIMP2 mRNA are set forth as SEQ ID. NO. 1 and SEQ ID NO:2, respectively.

As used herein, the term “nucleic acid molecule” or “nucleic acid” are used interchangeably and refer to an oligonucleotide, nucleotide or polynucleotide. Variations of “nucleic acid molecule” are described in more detail herein. A nucleic acid molecule encompasses both modified nucleic acid molecules and unmodified nucleic acid molecules as described herein. A nucleic acid molecule may include deoxyribonucleotides, ribonucleotides, modified nucleotides or nucleotide analogs in any combination.

As used herein, the term “nucleotide” refers to a chemical moiety having a sugar (or an analog thereof, or a modified sugar), a nucleotide base (or an analog thereof, or a modified base), and a phosphate group (or analog thereof, or a modified phosphate group). A nucleotide encompasses both modified nucleotides or unmodified nucleotides as described herein. As used herein, nucleotides may include deoxyribonucleotides (e.g., unmodified deoxyribonucleotides), ribonucleotides (e.g., unmodified ribonucleotides), and modified nucleotide analogs including, inter alia, locked nucleic acids and unlocked nucleic acids, peptide nucleic acids, L-nucleotides (also referred to as mirror nucleotides), ethylene-bridged nucleic acid (ENA), arabinoside, PACE, nucleotides with a 6 carbon sugar, as well as nucleotide analogs (including abasic nucleotides) often considered to be non-nucleotides. In some embodiments, nucleotides may be modified in the sugar, nucleotide base and/or in the phosphate group with any modification known in the art, such as modifications described herein. A “polynucleotide” or “oligonucleotide” as used herein refer to a chain of linked nucleotides; polynucleotides and oligonucleotides may likewise have modifications in the nucleotide sugar, nucleotide bases and phosphate backbones as are well known in the art and/or are disclosed herein.

As used herein, the term “short interfering nucleic acid”, “siNA”, or “short interfering nucleic acid molecule” refers to any nucleic acid molecule capable of modulating gene expression or viral replication. Preferably siNA inhibits or down regulates gene expression or viral replication. siNA includes without limitation nucleic acid molecules that are capable of mediating sequence specific RNAi, for example short interfering RNA (siRNA), double-stranded RNA (dsRNA), micro-RNA (miRNA), short hairpin RNA (shRNA), short interfering oligonucleotide, short interfering nucleic acid, short interfering modified oligonucleotide, chemically-modified siRNA, post-transcriptional gene silencing RNA (ptgsRNA), and others. As used herein, “short interfering nucleic acid”, “siNA”, or “short interfering nucleic acid molecule” has the meaning described in more detail elsewhere herein.

As used herein, the term “complementary” means that a nucleic acid can form hydrogen bond(s) with another nucleic acid sequence by either traditional Watson-Crick or other non-traditional types. In reference to the nucleic molecules disclosed herein, the binding free energy for a nucleic acid molecule with its complementary sequence is sufficient to allow the relevant function of the nucleic acid to proceed, e.g., RNAi activity. Determination of binding free energies for nucleic acid molecules is well known in the art (see, e.g., Turner et al., 1987, CSH Symp. Quant. Biol. LII pp. 123-133; Frier et al., 1986, Proc. Nat. Acad. Sci. USA 83:9373-9377; Turner et al., 1987, J. Am. Chem. Soc. 109:3783-3785). A percent complementarity indicates the percentage of contiguous residues in a nucleic acid molecule that can form hydrogen bonds (e.g., Watson-Crick base pairing) with a second nucleic acid sequence (e.g., 5, 6, 7, 8, 9, or 10 nucleotides out of a total of 10 nucleotides in the first oligonucleotide being based paired to a second nucleic acid sequence having 10 nucleotides represents 50%, 60%, 70%, 80%, 90%, and 100% complementary respectively). “Fully complementary” means that all the contiguous residues of a nucleic acid sequence will hydrogen bond with the same number of contiguous residues in a second nucleic acid sequence. In one embodiment, a nucleic acid molecule disclosed herein includes about 15 to about 35 or more (e.g., about 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34 or 35 or more) nucleotides that are complementary to one or more target nucleic acid molecules or a portion thereof.

As used herein, the term “sense region” refers to a nucleotide sequence of a siNA molecule complementary (partially or fully) to an antisense region of the siNA molecule. The sense strand of a siNA molecule can include a nucleic acid sequence having homology with a target nucleic acid sequence. As used herein, “sense strand” refers to nucleic acid molecule that includes a sense region and may also include additional nucleotides.

As used herein, the term “antisense region” refers to a nucleotide sequence of a siNA molecule complementary (partially or fully) to a target nucleic acid sequence. The antisense strand of a siNA molecule can optionally include a nucleic acid sequence complementary to a sense region of the siNA molecule. As used herein, “antisense strand” refers to nucleic acid molecule that includes an antisense region and may also include additional nucleotides.

As used herein, the term “RNA” refers to a molecule that includes at least one ribonucleotide residue.

As used herein, the term “duplex region” refers to the region in two complementary or substantially complementary oligonucleotides that form base pairs with one another, either by Watson-Crick base pairing or any other manner that allows for a duplex between oligonucleotide strands that are complementary or substantially complementary. For example, an oligonucleotide strand having 21 nucleotide units can base pair with another oligonucleotide of 21 nucleotide units, yet only 19 bases on each strand are complementary or substantially complementary, such that the “duplex region” consists of 19 base pairs. The remaining base pairs may, for example, exist as 5′ and 3′ overhangs. Further, within the duplex region, 100% complementarity is not required; substantial complementarity is allowable within a duplex region. Substantial complementarity refers to complementarity between the strands such that they are capable of annealing under biological conditions. Techniques to empirically determine if two strands are capable of annealing under biological conditions are well know in the art. Alternatively, two strands can be synthesized and added together under biological conditions to determine if they anneal to one another.

As used herein, the terms “non-pairing nucleotide analog” means a nucleotide analog which includes a non-base pairing moiety including but not limited to: 6 des amino adenosine (Nebularine), 4-Me-indole, 3-nitropyrrole, 5-nitroindole, Ds, Pa, N3-Me ribo U, N3-Me riboT, N3-Me dC, N3-Me-dT, N1-Me-dG, N1-Me-dA, N3-ethyl-dC, N3-Me dC. In some embodiments the non-base pairing nucleotide analog is a ribonucleotide. In other embodiments it is a deoxyribonucleotide.

As used herein, the term, “terminal functional group” includes without limitation a halogen, alcohol, amine, carboxylic, ester, amide, aldehyde, ketone, ether groups.

An “abasic nucleotide” or “abasic nucleotide analog” is as used herein may also be often referred to herein and in the art as a pseudo-nucleotide or an unconventional moiety. While a nucleotide is a monomeric unit of nucleic acid, generally consisting of a ribose or deoxyribose sugar, a phosphate, and a base (adenine, guanine, thymine, or cytosine in DNA; adenine, guanine, uracil, or cytosine in RNA). an abasic or pseudo-nucleotide lacks a base, and thus is not strictly a nucleotide as the term is generally used in the art. Abasic deoxyribose moieties include for example, abasic deoxyribose-3′-phosphate; 1,2-dideoxy-D-ribofuranose-3-phosphate; 1,4-anhydro-2-deoxy-D-ribitol-3-phosphate. Inverted abasic deoxyribose moieties include inverted deoxyriboabasic; 3′,5′ inverted deoxyabasic 5′-phosphate.

The term “capping moiety” (z″) as used herein includes a moiety which can be covalently linked to the 5′ terminus of (N′)y and includes abasic ribose moiety, abasic deoxyribose moiety, modifications abasic ribose and abasic deoxyribose moieties including 2′ O alkyl modifications; inverted abasic ribose and abasic deoxyribose moieties and modifications thereof; C6-imino-Pi; a mirror nucleotide including L-DNA and L-RNA; 5′OMe nucleotide; and nucleotide analogs including 4′,5′-methylene nucleotide; 1-(β-D-erythrofuranosyl)nucleotide; 4′-thio nucleotide, carbocyclic nucleotide; 5′-amino-alkyl phosphate; 1,3-diamino-2-propyl phosphate, 3-aminopropyl phosphate; 6-aminohexyl phosphate; 12-aminododecyl phosphate; hydroxypropyl phosphate; 1,5-anhydrohexitol nucleotide; alpha-nucleotide; threo-pentofuranosyl nucleotide; acyclic 3′,4′-seco nucleotide; 3,4-dihydroxybutyl nucleotide; 3,5-dihydroxypentyl nucleotide, 5′-5′-inverted abasic moiety; 1,4-butanediol phosphate; 5′-amino; and bridging or non bridging methylphosphonate and 5′-mercapto moieties.

Certain capping moieties may be abasic ribose or abasic deoxyribose moieties; inverted abasic ribose or abasic deoxyribose moieties; C6-amino-Pi; a mirror nucleotide including L-DNA and L-RNA. The nucleic acid molecules as disclosed herein may be synthesized using one or more inverted nucleotides, for example inverted thymidine or inverted adenine (for example see Takei, et al., 2002. JBC 277(26):23800-06).

The term “unconventional moiety” as used herein refers to non-nucleotide moieties including an abasic moiety, an inverted abasic moiety, a hydrocarbon (alkyl) moiety and derivatives thereof, and further includes a deoxyribonucleotide, a modified deoxyribonucleotide, a mirror nucleotide (L-DNA or L-RNA), a non-base pairing nucleotide analog and a nucleotide joined to an adjacent nucleotide by a 2′-5′ internucleotide phosphate bond; bridged nucleic acids including LNA and ethylene bridged nucleic acids, linkage modified (e.g. PACE) and base modified nucleotides as well as additional moieties explicitly disclosed herein as unconventional moieties.

As used herein, the term “inhibit”, “down-regulate”, or “reduce” with respect to gene expression means the expression of the gene, or level of RNA molecules or equivalent RNA molecules encoding one or more proteins or protein subunits (e.g., mRNA), or activity of one or more proteins or protein subunits, is reduced below that observed in the absence of an inhibitory factor (such as a nucleic acid molecule, e.g., an siNA, for example having structural features as described herein); for example the expression may be reduced to 90%, 80%, 70%, 60%, 50%, 40%, 30%, 20%, 10%, 5% or less than that observed in the absence of an inhibitor.

BRIEF DESCRIPTION OF THE FIGURES

FIGS. 1A-1D show exemplary polynucleotide and polypeptide sequences. FIG. 1A shows mRNA sequence of human TIMP1 (NM_(—)003254.2 GI:73858576; SEQ ID NO:1). FIG. 1B shows mRNA sequence of TIMP2 (NM_(—)003255.4 GI:738585774; SEQ ID NO:2). FIG. 1C shows polypeptide sequence of human TIMP1 (NP_(—)003245.1 GI:4507509; SEQ ID NO:3). FIG. 1D shows polypeptide sequence of human TIMP2 (NP_(—)003246.1 GI:4507511; SEQ ID NO:4).

FIG. 2 shows knock down efficacy as determined by qPCR of TIMP1-A, TIMP1-B or TIMP1-C siRNAs (Table C) for TIMP1. The siRNA compounds were capable of knocking down the target TIMP1 gene.

FIG. 3 shows knock down efficacy as determined by qPCR TIMP2-A, TIMP2-B, TIMP2-C, TIMP2-D and TIMP2-E siRNAs (Table D). The siRNA compounds were capable of knocking down the target TIMP2 gene.

FIG. 4 shows the results of an in vivo assay testing the efficacy of siTIMP1 and siTIMP2 in treating liver fibrosis. Analysis of the liver fibrosis area was performed using Sirius red staining. The fibrotic area was calculated as the mean of 4 liver sections. The bar graph summarizes the digital quantification of staining for each group.

DETAILED DESCRIPTION OF THE INVENTION

RNA Interference and siNA Nucleic Acid Molecules

RNA interference refers to the process of sequence-specific post-transcriptional gene silencing in animals mediated by short interfering RNAs (siRNAs) (Zamore et al., 2000, Cell, 101, 25-33; Fire et al., 1998, Nature, 391, 806; Hamilton et al., 1999, Science, 286, 950-951; Lin et al., 1999, Nature, 402, 128-129; Sharp, 1999, Genes & Dev., 13:139-141; and Strauss, 1999, Science, 286, 886). The corresponding process in plants (Heifetz et al., International PCT Publication No. WO 99/61631) is often referred to as post-transcriptional gene silencing (PTGS) or RNA silencing. The process of post-transcriptional gene silencing is thought to be an evolutionarily-conserved cellular defense mechanism used to prevent the expression of foreign genes (Fire et al., 1999, Trends Genet., 15, 358). Such protection from foreign gene expression may have evolved in response to the production of double-stranded RNAs (dsRNAs) derived from viral infection or from the random integration of transposon elements into a host genome via a cellular response that specifically destroys homologous single-stranded RNA or viral genomic RNA. The presence of dsRNA in cells triggers the RNAi response through a mechanism that has yet to be fully characterized. This mechanism appears to be different from other known mechanisms involving double stranded RNA-specific ribonucleases, such as the interferon response that results from dsRNA-mediated activation of protein kinase PKR and 2′,5′-oligoadenylate synthetase resulting in non-specific cleavage of mRNA by ribonuclease L (see for example U.S. Pat. Nos. 6,107,094; 5,898,031; Clemens et al., 1997, J. Interferon & Cytokine Res., 17, 503-524; Adah et al., 2001, Curr. Med. Chem., 8, 1189).

The presence of long dsRNAs in cells stimulates the activity of a ribonuclease III enzyme referred to as dicer (Bass, 2000, Cell, 101, 235; Zamore et al., 2000, Cell, 101, 25-33; Hammond et al., 2000, Nature, 404, 293). Dicer is involved in the processing of the dsRNA into short pieces of dsRNA known as short interfering RNAs (siRNAs) (Zamore et al., 2000, Cell, 101, 25-33; Bass, 2000, Cell, 101, 235; Berstein et al., 2001, Nature, 409, 363). Short interfering RNAs derived from dicer activity are typically about 21 to about 23 nucleotides in length and include about 19 base pair duplexes (Zamore et al., 2000, Cell, 101, 25-33; Elbashir et al., 2001, Genes Dev., 15, 188). Dicer has also been implicated in the excision of 21- and 22-nucleotide small temporal RNAs (stRNAs) from precursor RNA of conserved structure that are implicated in translational control (Hutvagner et al., 2001, Science, 293, 834). The RNAi response also features an endonuclease complex, commonly referred to as an RNA-induced silencing complex (RISC), which mediates cleavage of single-stranded RNA having sequence complementary to the antisense strand of the siRNA duplex. Cleavage of the target RNA takes place in the middle of the region complementary to the antisense strand of the siRNA duplex (Elbashir et al., 2001, Genes Dev., 15, 188).

RNAi has been studied in a variety of systems. Fire et al., 1998, Nature, 391, 806, were the first to observe RNAi in C. elegans. Bahramian and Zarbl, 1999, Molecular and Cellular Biology, 19, 274-283 and Wianny and Goetz, 1999, Nature Cell Biol., 2, 70, describe RNAi mediated by dsRNA in mammalian systems. Hammond et al., 2000, Nature, 404, 293, describe RNAi in Drosophila cells transfected with dsRNA. Elbashir et al., 2001, Nature, 411, 494 and Tuschl et al., International PCT Publication No. WO 01/75164, describe RNAi induced by introduction of duplexes of synthetic 21-nucleotide RNAs in cultured mammalian cells including human embryonic kidney and HeLa cells. Recent work in Drosophila embryonic lysates (Elbashir et al., 2001, EMBO J., 20, 6877 and Tuschl et al., International PCT Publication No. WO 01/75164) has revealed certain requirements for siRNA length, structure, chemical composition, and sequence that are essential to mediate efficient RNAi activity.

Nucleic acid molecules (for example having structural features as disclosed herein) may inhibit or down regulate gene expression or viral replication by mediating RNA interference “RNAi” or gene silencing in a sequence-specific manner; see e.g., Zamore et al., 2000, Cell, 101, 25-33; Bass, 2001, Nature, 411, 428-429; Elbashir et al., 2001, Nature, 411, 494-498; and Kreutzer et al., International PCT Publication No. WO 00/44895; Zernicka-Goetz et al., International PCT Publication No. WO 01/36646; Fire, International PCT Publication No. WO 99/32619; Plaetinck et al., International PCT Publication No. WO 00/01846; Mello and Fire, International PCT Publication No. WO 01/29058; Deschamps-Depaillette, International PCT Publication No. WO 99/07409; and Li et al., International PCT Publication No. WO 00/44914; Allshire, 2002, Science, 297, 1818-1819; Volpe et al., 2002, Science, 297, 1833-1837; Jenuwein, 2002, Science, 297, 2215-2218; and Hall et al., 2002, Science, 297, 2232-2237; Hutvagner and Zamore, 2002, Science, 297, 2056-60; McManus et al., 2002, RNA, 8, 842-850; Reinhart et al., 2002, Gene & Dev., 16, 1616-1626; and Reinhart & Bartel, 2002, Science, 297, 1831).

An siNA nucleic acid molecule can be assembled from two separate polynucleotide strands, where one strand is the sense strand and the other is the antisense strand in which the antisense and sense strands are self-complementary (i.e. each strand includes nucleotide sequence that is complementary to nucleotide sequence in the other strand); such as where the antisense strand and sense strand form a duplex or double stranded structure having any length and structure as described herein for nucleic acid molecules as provided, for example wherein the double stranded region (duplex region) is about 15 to about 49 (e.g., about 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, or 49 base pairs); the antisense strand includes nucleotide sequence that is complementary to nucleotide sequence in a target nucleic acid molecule (i.e., TIMP1 and TIMP2 mRNA) or a portion thereof and the sense strand includes nucleotide sequence corresponding to the target nucleic acid sequence or a portion thereof (e.g., about 17 to about 49 or more nucleotides of the nucleic acid molecules herein are complementary to the target nucleic acid or a portion thereof).

In certain aspects and embodiments a nucleic acid molecule (e.g., a siNA molecule) provided herein may be a “RISC length” molecule or may be a Dicer substrate as described in more detail below.

An siNA nucleic acid molecule may include separate sense and antisense sequences or regions, where the sense and antisense regions are covalently linked by nucleotide or non-nucleotide linkers molecules as is known in the art, or are alternately non-covalently linked by ionic interactions, hydrogen bonding, van der Waals interactions, hydrophobic interactions, and/or stacking interactions. Nucleic acid molecules may include a nucleotide sequence that is complementary to nucleotide sequence of a target gene. Nucleic acid molecules may interact with nucleotide sequence of a target gene in a manner that causes inhibition of expression of the target gene.

Alternatively, an siNA nucleic acid molecule is assembled from a single polynucleotide, where the self-complementary sense and antisense regions of the nucleic acid molecules are linked by means of a nucleic acid based or non-nucleic acid-based linker(s), i.e., the antisense strand and the sense strand are part of one single polynucleotide that having an antisense region and sense region that fold to form a duplex region (for example to form a “hairpin” structure as is well known in the art). Such siNA nucleic acid molecules can be a polynucleotide with a duplex, asymmetric duplex, hairpin or asymmetric hairpin secondary structure, having self-complementary sense and antisense regions, wherein the antisense region includes nucleotide sequence that is complementary to nucleotide sequence in a separate target nucleic acid molecule or a portion thereof and the sense region having nucleotide sequence corresponding to the target nucleic acid sequence (e.g., a sequence of TIMP1 and TIMP2 mRNA). Such siNA nucleic acid molecules can be a circular single-stranded polynucleotide having two or more loop structures and a stem comprising self-complementary sense and antisense regions, wherein the antisense region includes nucleotide sequence that is complementary to nucleotide sequence in a target nucleic acid molecule or a portion thereof and the sense region having nucleotide sequence corresponding to the target nucleic acid sequence or a portion thereof, and wherein the circular polynucleotide can be processed either in vivo or in vitro to generate an active nucleic acid molecule capable of mediating RNAi.

The following nomenclature is often used in the art to describe lengths and overhangs of siNA molecules and may be used throughout the specification and Examples. Names given to duplexes indicate the length of the oligomers and the presence or absence of overhangs. For example, a “21+2” duplex contains two nucleic acid strands both of which are 21 nucleotides in length, also termed a 21-mer siRNA duplex or a 21-mer nucleic acid and having a 2 nucleotides 3′-overhang. A “21-2” design refers to a 21-mer nucleic acid duplex with a 2 nucleotides 5′-overhang. A 21-0 design is a 21-mer nucleic acid duplex with no overhangs (blunt). A “21+2UU” is a 21-mer duplex with 2-nucleotides 3′-overhang and the terminal 2 nucleotides at the 3′-ends are both U residues (which may result in mismatch with target sequence). The aforementioned nomenclature can be applied to siNA molecules of various lengths of strands, duplexes and overhangs (such as 19-0, 21+2, 27+2, and the like). In an alternative but similar nomenclature, a “ 25/27” is an asymmetric duplex having a 25 base sense strand and a 27 base antisense strand with a 2-nucleotides 3′-overhang. A “ 27/25” is an asymmetric duplex having a 27 base sense strand and a 25 base antisense strand.

Chemical Modifications

In certain aspects and embodiments, nucleic acid molecules (e.g., siNA molecules) as provided herein include one or more modifications (or chemical modifications). In certain embodiments, such modifications include any changes to a nucleic acid molecule or polynucleotide that would make the molecule different than a standard ribonucleotide or RNA molecule (i.e., that includes standard adenine, cytosine, uracil, or guanine moieties); which may be referred to as an “unmodified” ribonucleotide or unmodified ribonucleic acid. Traditional DNA bases and polynucleotides having a 2′-deoxy sugar represented by adenine, cytosine, thymine, or guanine moieties may be referred to as an “unmodified deoxyribonucleotide” or “unmodified deoxyribonucleic acid”; accordingly, the term “unmodified nucleotide” or “unmodified nucleic acid” as used herein refers to an “unmodified ribonucleotide” or “unmodified ribonucleic acid” unless there is a clear indication to the contrary. Such modifications can be in the nucleotide sugar, nucleotide base, nucleotide phosphate group and/or the phosphate backbone of a polynucleotide.

In certain embodiments modifications as disclosed herein may be used to increase RNAi activity of a molecule and/or to increase the in vivo stability of the molecules, particularly the stability in serum, and/or to increase bioavailability of the molecules. Non-limiting examples of modifications include without limitation internucleotide or internucleoside linkages; deoxyribonucleotides or dideoxyribonucleotides at any position and strand of the nucleic acid molecule; nucleic acid (e.g., ribonucleic acid) with a modification at the 2′-position preferably selected from an amino, fluoro, methoxy, alkoxy and alkyl; 2′-deoxyribonucleotides, 2′-O-methyl ribonucleotides, 2′-deoxy-2′-fluoro ribonucleotides, “universal base” nucleotides, “acyclic” nucleotides, 5-C-methyl nucleotides, biotin group, and terminal glyceryl and/or inverted deoxy abasic residue incorporation, sterically hindered molecules, such as fluorescent molecules and the like. Other nucleotides modifiers could include 3′-deoxyadenosine (cordycepin), 3′-azido-3′-deoxythymidine (AZT), 2′,3′-dideoxyinosine (ddI), 2′,3′-dideoxy-3′-thiacytidine (3TC), 2′,3′-didehydro-2′,3′-dideoxythymidi-ne (d4T) and the monophosphate nucleotides of 3′-azido-3′-deoxythymidine (AZT), 2′,3′-dideoxy-3′-thiacytidine (3TC) and 2′,3′-didehydro-2′,3′-dide-oxythymidine (d4T). Further details on various modifications are described in more detail below.

Modified nucleotides include those having a Northern conformation (e.g., Northern pseudorotation cycle, see for example Saenger, Principles of Nucleic Acid Structure, Springer-Verlag ed., 1984). Non-limiting examples of nucleotides having a northern configuration include locked nucleic acid (LNA) nucleotides (e.g., 2′-O, 4′-C-methylene-(D-ribofuranosyl)nucleotides); 2′-methoxyethoxy (MOE) nucleotides; 2′-methyl-thio-ethyl, 2′-deoxy-2′-fluoro nucleotides, 2′-deoxy-2′-chloro nucleotides, 2′-azido nucleotides, and 2′-O-methyl nucleotides. Locked nucleic acids, or LNA's are described, for example, in Elman et al., 2005; Kurreck et al., 2002; Crinelli et al., 2002; Braasch and Corey, 2001; Bondensgaard et al., 2000; Wahlestedt et al., 2000; and International Patent Publication Nos. WO 00/47599, WO 99/14226, and WO 98/39352 and WO 2004/083430. In one embodiment, an LNA is incorporated at the 5′ terminus of the sense strand.

Chemical modifications also include unlocked nucleic acids, or UNAs, which are non-nucleotide, acyclic analogues, in which the C2′-C3′ bond is not present (although UNAs are not truly nucleotides, they are expressly included in the scope of “modified” nucleotides or modified nucleic acids as contemplated herein). In particular embodiments, nucleic acid molecules with an overhang may be modified to have UNAs at the overhang positions (i.e., 2 nucleotide overhand). In other embodiments, UNAs are included at the 3′- or 5′-ends. A UNA may be located anywhere along a nucleic acid strand, i.e. at position 7. Nucleic acid molecules may contain one or more than UNA. Exemplary UNAs are disclosed in Nucleic Acids Symposium Series No. 52 p. 133-134 (2008). In certain embodiments a nucleic acid molecule (e.g., a siNA molecule) as described herein include one or more UNAs; or one UNA. In some embodiments, a nucleic acid molecule (e.g., a siNA molecule) as described herein that has a 3′-overhang include one or two UNAs in the 3′ overhang. In some embodiments a nucleic acid molecule (e.g., a siNA molecule) as described herein includes a UNA (for example one UNA) in the antisense strand; for example in position 6 or position 7 of the antisense strand. Chemical modifications also include non-pairing nucleotide analogs, for example as disclosed herein. Chemical modifications further include unconventional moieties as disclosed herein.

Chemical modifications also include terminal modifications on the 5′ and/or 3′ part of the oligonucleotides and are also known as capping moieties. Such terminal modifications are selected from a nucleotide, a modified nucleotide, a lipid, a peptide, and a sugar.

Chemical modifications also include six membered “six membered ring nucleotide analogs.” Examples of six-membered ring nucleotide analogs are disclosed in Allart, et al (Nucleosides & Nucleotides, 1998, 17:1523-1526; and Perez-Perez, et al., 1996, Bioorg. and Medicinal Chem Letters 6:1457-1460) Oligonucleotides including 6-membered ring nucleotide analogs including hexitol and altritol nucleotide monomers are disclosed in International patent application publication No. WO 2006/047842.

Chemical modifications also include “mirror” nucleotides which have a reversed chirality as compared to normal naturally occurring nucleotide; that is a mirror nucleotide may be an “L-nucleotide” analogue of naturally occurring D-nucleotide (see U.S. Pat. No. 6,602,858). Mirror nucleotides may further include at least one sugar or base modification and/or a backbone modification, for example, as described herein, such as a phosphorothioate or phosphonate moiety. U.S. Pat. No. 6,602,858 discloses nucleic acid catalysts including at least one L-nucleotide substitution. Mirror nucleotides include for example L-DNA (L-deoxyriboadenosine-3′-phosphate (mirror dA); L-deoxyribocytidine-3′-phosphate (mirror dC); L-deoxyriboguanosine-3′-phosphate (mirror dG); L-deoxyribothymidine-3′-phosphate (mirror image dT)) and L-RNA (L-riboadenosine-3′-phosphate (mirror rA); L-ribocytidine-3′-phosphate (mirror rC); L-riboguanosine-3′-phosphate (mirror rG); L-ribouracil-3′-phosphate (mirror dU).

In some embodiments, modified ribonucleotides include modified deoxyribonucleotides, for example 5′OMe DNA (5-methyl-deoxyriboguanosine-3′-phosphate) which may be useful as a nucleotide in the 5′ terminal position (position number 1); PACE (deoxyriboadenine 3′ phosphonoacetate, deoxyribocytidine 3′ phosphonoacetate, deoxyriboguanosine 3′ phosphonoacetate, deoxyribothymidine 3′ phosphonoacetate.

Modifications may be present in one or more strands of a nucleic acid molecule disclosed herein, e.g., in the sense strand, the antisense strand, or both strands. In certain embodiments, the antisense strand may include modifications and the sense strand my only include unmodified RNA.

Nucleobases

Nucleobases of the nucleic acid disclosed herein may include unmodified ribonucleotides (purines and pyrimidines) such as adenine, guanine, cytosine, uridine. The nucleobases in one or both strands can be modified with natural and synthetic nucleobases such as thymine, xanthine, hypoxanthine, inosine, 2-aminoadenine, 6-methyl and other alkyl derivatives of adenine and guanine, any “universal base” nucleotides; 2-propyl and other alkyl derivatives of adenine and guanine, 5-halouracil and cytosine, 5-propynyl uracil and cytosine, 6-azo uracil, cytosine and thymine, 5-uracil (pseudouracil), 4-thiouracil, 8-halo, amino, thiol, thioalkyl, hydroxyl and other 8-substituted adenines and guanines, 5-trifluoromethyl and other 5-substituted uracils and cytosines, 7-methylguanine, deazapurines, heterocyclic substituted analogs of purines and pyrimidines, e.g., aminoethyoxy phenoxazine, derivatives of purines and pyrimidines (e.g., 1-alkyl-, 1-alkenyl-, heteroaromatic- and 1-alkynyl derivatives) and tautomers thereof, 8-oxo-N6-methyladenine, 7-diazaxanthine, 5-methylcytosine, 5-methyluracil, 5-(1-propynyl)uracil, 5-(1-propynyl)cytosine and 4,4-ethanocytosine). Other examples of suitable bases include non-purinyl and non-pyrimidinyl bases such as 2-aminopyridine and triazines.

Sugar Moieties

Sugar moieties in nucleic acid disclosed herein may include 2′-hydroxyl-pentofuranosyl sugar moiety without any modification. Alternatively, sugar moieties can be modified such as, 2′-deoxy-pentofuranosyl sugar moiety, D-ribose, hexose, modification at the 2′ position of the pentofuranosyl sugar moiety such as 2′-O-alkyl (including 2′-O-methyl and 2′-O-ethyl), i.e., 2′-alkoxy, 2′-amino, 2′-O-allyl, 2′-S-alkyl, 2′-halogen (including 2′-fluoro, chloro, and bromo), 2′-methoxyethoxy, 2′-O-methoxyethyl, 2′-O-2-methoxyethyl, 2′-allyloxy (—OCH₂CH═CH₂), 2′-propargyl, 2′-propyl, ethynyl, propenyl, CF, cyano, imidazole, carboxylate, thioate, C₁ to C₁₀ lower alkyl, substituted lower alkyl, alkaryl or aralkyl, OCF₃, OCN, O-, S-, or N-alkyl; O-, S, or N-alkenyl; SOCH₃; SO₂CH₃; ONO₂; NO₂, N₃; heterozycloalkyl; heterozycloalkaryl; aminoalkylamino; polyalkylamino or substituted silyl, as, among others, for example as described in European patents EP 0 586 520 B1 or EP 0 618 925 B1.

Alkyl group includes saturated aliphatic groups, including straight-chain alkyl groups (e.g., methyl, ethyl, propyl, butyl, pentyl, hexyl, heptyl, octyl, nonyl, decyl, etc.), branched-chain alkyl groups (isopropyl, tert-butyl, isobutyl, etc.), cycloalkyl (alicyclic) groups (cyclopropyl, cyclopentyl, cyclohexyl, cycloheptyl, cyclooctyl), alkyl substituted cycloalkyl groups, and cycloalkyl substituted alkyl groups. In certain embodiments, a straight chain or branched chain alkyl has 6 or fewer carbon atoms in its backbone (e.g., C₁-C₆ for straight chain, C₃-C₆ for branched chain), and more preferably 4 or fewer. Likewise, preferred cycloalkyls may have from 3-8 carbon atoms in their ring structure, and more preferably have 5 or 6 carbons in the ring structure. The term C₁-C₆ includes alkyl groups containing 1 to 6 carbon atoms. The alkyl group can be substituted alkyl group such as alkyl moieties having substituents replacing a hydrogen on one or more carbons of the hydrocarbon backbone. Such substituents can include, for example, alkenyl, alkynyl, halogen, hydroxyl, alkylcarbonyloxy, arylcarbonyloxy, alkoxycarbonyloxy, aryloxycarbonyloxy, carboxylate, alkylcarbonyl, arylcarbonyl, alkoxycarbonyl, aminocarbonyl, alkylaminocarbonyl, dialkylaminocarbonyl, alkylthiocarbonyl, alkoxyl, phosphate, phosphonato, phosphinato, cyano, amino (including alkyl amino, dialkylamino, arylamino, diarylamino, and alkylarylamino), acylamino (including alkylcarbonylamino, arylcarbonylamino, carbamoyl and ureido), amidino, imino, sulfhydryl, alkylthio, arylthio, thiocarboxylate, sulfates, alkylsulfinyl, sulfonato, sulfamoyl, sulfonamido, nitro, trifluoromethyl, cyano, azido, heterocyclyl, alkylaryl, or an aromatic or heteroaromatic moiety.

Alkoxy group includes substituted and unsubstituted alkyl, alkenyl, and alkynyl groups covalently linked to an oxygen atom. Examples of alkoxy groups include methoxy, ethoxy, isopropyloxy, propoxy, butoxy, and pentoxy groups. Examples of substituted alkoxy groups include halogenated alkoxy groups. The alkoxy groups can be substituted with groups such as alkenyl, alkynyl, halogen, hydroxyl, alkylcarbonyloxy, arylcarbonyloxy, alkoxycarbonyloxy, aryloxycarbonyloxy, carboxylate, alkylcarbonyl, arylcarbonyl, alkoxycarbonyl, aminocarbonyl, alkylaminocarbonyl, dialkylaminocarbonyl, alkylthiocarbonyl, alkoxyl, phosphate, phosphonato, phosphinato, cyano, amino (including alkyl amino, dialkylamino, arylamino, diarylamino, and alkylarylamino), acylamino (including alkylcarbonylamino, arylcarbonylamino, carbamoyl and ureido), amidino, imino, sulfhydryl, alkylthio, arylthio, thiocarboxylate, sulfates, alkylsulfinyl, sulfonato, sulfamoyl, sulfonamido, nitro, trifluoromethyl, cyano, azido, heterocyclyl, alkylaryl, or an aromatic or heteroaromatic moieties. Examples of halogen substituted alkoxy groups include, but are not limited to, fluoromethoxy, difluoromethoxy, trifluoromethoxy, chloromethoxy, dichloromethoxy, trichloromethoxy, etc.

In some embodiments, the pentafuronosyl ring may be replaced with acyclic derivatives lacking the C2′-C3′-bond of the pentafuronosyl ring. For example, acyclonucleotides may substitute a 2-hydroxyethoxymethyl group for-the 2′-deoxyribofuranosyl sugar normally present in dNMPs.

Halogens include fluorine, bromine, chlorine, iodine.

Backbone

The nucleoside subunits of the nucleic acid disclosed herein may be linked to each other by phosphodiester bond. The phosphodiester bond may be optionally substituted with other linkages. For example, phosphorothioate, thiophosphate-D-ribose entities, triester, thioate, 2′-5′ bridged backbone (may also be referred to as 5′-2′), PACE, 3′-(or -5′)deoxy-3′-(or -5′)thio-phosphorothioate, phosphorodithioate, phosphoroselenates, 3′-(or -5′)deoxy phosphinates, borano phosphates, 3′-(or -5′)deoxy-3′-(or 5′-)amino phosphoramidates, hydrogen phosphonates, phosphonates, borano phosphate esters, phosphoramidates, alkyl or aryl phosphonates and phosphotriester modifications such as alkylphosphotriesters, phosphotriester phosphorus linkages, 5′-ethoxyphosphodiester, P-alkyloxyphosphotriester, methylphosphonate, and nonphosphorus containing linkages for example, carbonate, carbamate, silyl, sulfur, sulfonate, sulfonamide, formacetal, thioformacetyl, oxime, methyleneimino, methylenemethylimino, methylenehydrazo, methylenedimethylhydrazo and methyleneoxymethylimino linkages.

Nucleic acid molecules disclosed herein may include a peptide nucleic acid (PNA) backbone. The PNA backbone is includes repeating N-(2-aminoethyl)-glycine units linked by peptide bonds. The various bases such as purine, pyrimidine, natural and synthetic bases are linked to the backbone by methylene carbonyl bonds.

Terminal Phosphates

Modifications can be made at terminal phosphate groups. Non-limiting examples of different stabilization chemistries can be used, e.g., to stabilize the 3′-end of nucleic acid sequences, including (1) [3-3′]-inverted deoxyribose; (2) deoxyribonucleotide; (3) [5′-3′]-3′-deoxyribonucleotide; (4) [5′-3′]-ribonucleotide; (5) [5′-3′]-3′-O-methyl ribonucleotide; (6) 3′-glyceryl; (7) [3′-5′]-3′-deoxyribonucleotide; (8) [3′-3′]-deoxyribonucleotide; (9) [5′-2′]-deoxyribonucleotide; and (10) [5-3′]-dideoxyribonucleotide. In addition to unmodified backbone chemistries can be combined with one or more different backbone modifications described herein.

Exemplary chemically modified terminal phosphate groups include those shown below:

Conjugates

Modified nucleotides and nucleic acid molecules (e.g., siNA molecules) as provided herein may include conjugates, for example, a conjugate covalently attached to the chemically-modified nucleic acid molecule. Non-limiting examples of conjugates include conjugates and ligands described in Vargeese et al., U.S. Ser. No. 10/427,160. The conjugate may be covalently attached to a nucleic acid molecule (such as an siNA molecule) via a biodegradable linker. The conjugate molecule may be attached at the 3′-end of either the sense strand, the antisense strand, or both strands of the chemically-modified nucleic acid molecule.

The conjugate molecule may be attached at the 5′-end of either the sense strand, the antisense strand, or both strands of the chemically-modified nucleic acid molecule. The conjugate molecule may be attached both the 3′-end and 5′-end of either the sense strand, the antisense strand, or both strands of the chemically-modified nucleic acid molecule, or any combination thereof. In one embodiment, a conjugate molecule may include a molecule that facilitates delivery of a chemically-modified nucleic acid molecule into a biological system, such as a cell. In another embodiment, the conjugate molecule attached to the chemically-modified nucleic acid molecule is a polyethylene glycol, human serum albumin, or a ligand for a cellular receptor that can mediate cellular uptake. Examples of specific conjugate molecules contemplated by herein that can be attached to chemically-modified nucleic acid molecules are described in Vargeese et al., U.S. Ser. No. 10/201,394.

Linkers

A nucleic acid molecule provided herein (e.g., an siNA) molecule may include a nucleotide, non-nucleotide, or mixed nucleotide/non-nucleotide linker that joins the sense region of the nucleic acid to the antisense region of the nucleic acid. A nucleotide linker can be a linker of ≧2 nucleotides in length, for example about 3, 4, 5, 6, 7, 8, 9, or 10 nucleotides in length. The nucleotide linker can be a nucleic acid aptamer. By “aptamer” or “nucleic acid aptamer” as used herein refers to a nucleic acid molecule that binds specifically to a target molecule wherein the nucleic acid molecule has sequence that includes a sequence recognized by the target molecule in its natural setting. Alternately, an aptamer can be a nucleic acid molecule that binds to a target molecule (such as TIMP1 and TIMP2 mRNA) where the target molecule does not naturally bind to a nucleic acid. For example, the aptamer can be used to bind to a ligand-binding domain of a protein, thereby preventing interaction of the naturally occurring ligand with the protein. This is a non-limiting example and those in the art will recognize that other embodiments can be readily generated using techniques generally known in the art. See e.g., Gold et al.; 1995, Annu Rev. Biochem., 64, 763; Brody and Gold, 2000, J. Biotechnol., 74, 5; Sun, 2000, Curr. Opin. Mol. Ther., 2, 100; Kusser, 2000, J. Biotechnol., 74, 27; Hermann and Patel, 2000, Science, 287, 820; and Jayasena, 1999, Clinical Chemistry, 45, 1628.

A non-nucleotide linker may include an abasic nucleotide, polyether, polyamine, polyamide, peptide, carbohydrate, lipid, polyhydrocarbon, or other polymeric compounds (e.g. polyethylene glycols such as those having between 2 and 100 ethylene glycol units). Specific examples include those described by Seela and Kaiser, Nucleic Acids Res. 1990, 18:6353 and Nucleic Acids Res. 1987, 15:3113; Cload and Schepartz, J. Am. Chem. Soc. 1991, 113:6324; Richardson and Schepartz, J. Am. Chem. Soc. 1991, 113:5109; Ma et al., Nucleic Acids Res. 1993, 21:2585 and Biochemistry 1993, 32:1751; Durand et al., Nucleic Acids Res. 1990, 18:6353; McCurdy et al., Nucleosides & Nucleotides 1991, 10:287; Jschke et al., Tetrahedron Lett. 1993, 34:301; Ono et al., Biochemistry 1991, 30:9914; Arnold et al., International Publication No. WO 89/02439; Usman et al., International Publication No. WO 95/06731; Dudycz et al., International Publication No. WO 95/11910 and Ferentz and Verdine, J. Am. Chem. Soc. 1991, 113:4000.

5′ Ends, 3′ Ends and Overhangs

Nucleic acid molecules disclosed herein (e.g., siNA molecules) may be blunt-ended on both sides, have overhangs on both sides or a combination of blunt and overhang ends. Overhangs may occur on either the 5′- or 3′-end of the sense or antisense strand.

5′- and/or 3′-ends of double stranded nucleic acid molecules (e.g., siNA) may be blunt ended or have an overhang. The 5′-end may be blunt ended and the 3′-end has an overhang in either the sense strand or the antisense strand. In other embodiments, the 3′-end may be blunt ended and the 5′-end has an overhang in either the sense strand or the antisense strand. In yet other embodiments, both the 5′- and 3′-end are blunt ended or both the 5′- and 3′-ends have overhangs.

The 5′- and/or 3′-end of one or both strands of the nucleic acid may include a free hydroxyl group. The 5′- and/or 3′-end of any nucleic acid molecule strand may be modified to include a chemical modification. Such modification may stabilize nucleic acid molecules, e.g., the 3′-end may have increased stability due to the presence of the nucleic acid molecule modification. Examples of end modifications (e.g., terminal caps) include, but are not limited to, abasic, deoxy abasic, inverted (deoxy) abasic, glyceryl, dinucleotide, acyclic nucleotide, amino, fluoro, chloro, bromo, CN, CF, methoxy, imidazole, carboxylate, thioate, C₁ to C₁₀ lower alkyl, substituted lower alkyl, alkaryl or aralkyl, OCF₃, OCN, O-, S-, or N-alkyl; O-, S-, or N-alkenyl; SOCH₃; SO₂CH₃; ONO₂; NO₂, N₃; heterocycloalkyl; heterocycloalkaryl; aminoalkylamino; polyalkylamino or substituted silyl, as, among others, described in European patents EP 586,520 and EP 618,925 and other modifications disclosed herein.

Nucleic acid molecules include those with blunt ends, i.e., ends that do not include any overhanging nucleotides. A nucleic acid molecule can include one or more blunt ends. The blunt ended nucleic acid molecule has a number of base pairs equal to the number of nucleotides present in each strand of the nucleic acid molecule. The nucleic acid molecule can include one blunt end, for example where the 5′-end of the antisense strand and the 3′-end of the sense strand do not have any overhanging nucleotides. Nucleic acid molecule may include one blunt end, for example where the 3′-end of the antisense strand and the 5′-end of the sense strand do not have any overhanging nucleotides. A nucleic acid molecule may include two blunt ends, for example where the 3′-end of the antisense strand and the 5′-end of the sense strand as well as the 5′-end of the antisense strand and 3′-end of the sense strand do not have any overhanging nucleotides. Other nucleotides present in a blunt ended nucleic acid molecule can include, for example, mismatches, bulges, loops, or wobble base pairs to modulate the activity of the nucleic acid molecule to mediate RNA interference.

In certain embodiments of the nucleic acid molecules (e.g., siNA molecules) provided herein, at least one end of the molecule has an overhang of at least one nucleotide (for example 1 to 8 overhang nucleotides). For example, one or both strands of a double stranded nucleic acid molecule disclosed herein may have an overhang at the 5′-end or at the 3′-end or both. An overhang may be present at either or both the sense strand and antisense strand of the nucleic acid molecule. The length of the overhang may be as little as one nucleotide and as long as 1 to 8 or more nucleotides (e.g., 1, 2, 3, 4, 5, 6, 7 or 8 nucleotides; in some preferred embodiments an overhang is 2, 3, 4, 5, 6, 7 or 8 nucleotides; for example an overhang may be 2 nucleotides. The nucleotide(s) forming the overhang may be include deoxyribonucleotide(s), ribonucleotide(s), natural and non-natural nucleobases or any nucleotide modified in the sugar, base or phosphate group such as disclosed herein. A double stranded nucleic acid molecule may have both 5′- and 3′-overhangs. The overhangs at the 5′- and 3′-end may be of different lengths. An overhang may include at least one nucleic acid modification which may be deoxyribonucleotide. One or more deoxyribonucleotides may be at the 5′-terminal. The 3′-end of the respective counter-strand of the nucleic acid molecule may not have an overhang, more preferably not a deoxyribonucleotide overhang. The one or more deoxyribonucleotide may be at the 3′-terminal. The 5′-end of the respective counter-strand of the dsRNA may not have an overhang, more preferably not a deoxyribonucleotide overhang. The overhang in either the 5′- or the 3′-end of a strand may be 1 to 8 (e.g., about 1, 2, 3, 4, 5, 6, 7 or 8) unpaired nucleotides, preferably, the overhang is 2-3 unpaired nucleotides; more preferably 2 unpaired nucleotides. Nucleic acid molecules may include duplex nucleic acid molecules with overhanging ends of about 1 to about 20 (e.g., about 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 1, 15, 16, 17, 18, 19 or 20); preferably 1-8 (e.g., about 1, 2, 3, 4, 5, 6, 7 or 8) nucleotides, for example, about 21-nucleotide duplexes with about 19 base pairs and 3′-terminal mononucleotide, dinucleotide, or trinucleotide overhangs. Nucleic acid molecules herein may include duplex nucleic acid molecules with blunt ends, where both ends are blunt, or alternatively, where one of the ends is blunt. Nucleic acid molecules disclosed herein can include one or more blunt ends, i.e. where a blunt end does not have any overhanging nucleotides. In one embodiment, the blunt ended nucleic acid molecule has a number of base pairs equal to the number of nucleotides present in each strand of the nucleic acid molecule. The nucleic acid molecule may include one blunt end, for example where the 5′-end of the antisense strand and the 3′-end of the sense strand do not have any overhanging nucleotides. The nucleic acid molecule may include one blunt end, for example where the 3′-end of the antisense strand and the 5′-end of the sense strand do not have any overhanging nucleotides. A nucleic acid molecule may include two blunt ends, for example where the 3′-end of the antisense strand and the 5′-end of the sense strand as well as the 5′-end of the antisense strand and 3′-end of the sense strand do not have any overhanging nucleotides. In certain preferred embodiments the nucleic acid compounds are blunt ended. Other nucleotides present in a blunt ended siNA molecule can include, for example, mismatches, bulges, loops, or wobble base pairs to modulate the activity of the nucleic acid molecule to mediate RNA interference.

In many embodiments one or more, or all, of the overhang nucleotides of a nucleic acid molecule (e.g., a siNA molecule) as described herein includes are modified such as described herein; for example one or more, or all, of the nucleotides may be 2′-deoxyribonucleotides.

Amount, Location and Patterns of Modifications.

Nucleic acid molecules (e.g., siNA molecules) disclosed herein may include modified nucleotides as a percentage of the total number of nucleotides present in the nucleic acid molecule. As such, a nucleic acid molecule may include about 5% to about 100% modified nucleotides (e.g., about 5%, 10%, 15%, 20%, 25%, 30%, 35%, 40%, 45%, 50%, 55%, 60%, 65%, 70%, 75%, 80%, 85%, 90%, 95% or 100% modified nucleotides). The actual percentage of modified nucleotides present in a given nucleic acid molecule will depend on the total number of nucleotides present in the nucleic acid. If the nucleic acid molecule is single stranded, the percent modification can be based upon the total number of nucleotides present in the single stranded nucleic acid molecule. Likewise, if the nucleic acid molecule is double stranded, the percent modification can be based upon the total number of nucleotides present in the sense strand, antisense strand, or both the sense and antisense strands.

Nucleic acid molecules disclosed herein may include unmodified RNA as a percentage of the total nucleotides in the nucleic acid molecule. As such, a nucleic acid molecule may include about 5% to about 100% modified nucleotides (e.g., about 5%, 10%, 15%, 20%, 25%, 30%, 35%, 40%, 45%, 50%, 55%, 60%, 65%, 70%, 75%, 80%, 85%, 90%, 95% or 100% of total nucleotides present in a nucleic acid molecule.

A nucleic acid molecule (e.g., an siNA molecule) may include a sense strand that includes about 1 to about 5, specifically about 1, 2, 3, 4, or 5 phosphorothioate internucleotide linkages, and/or one or more (e.g., about 1, 2, 3, 4, 5, or more) 2′-deoxy, 2′-O-methyl, 2′-deoxy-2′-fluoro, and/or one or more (e.g., about 1, 2, 3, 4, 5, or more) universal base modified nucleotides, and optionally a terminal cap molecule at the 3-end, the 5′-end, or both of the 3′- and 5′-ends of the sense strand; and wherein the antisense strand includes about 1 to about 5 or more, specifically about 1, 2, 3, 4, 5, or more phosphorothioate internucleotide linkages, and/or one or more (e.g., about 1, 2, 3, 4, 5, 6, 7, 8, 9, 10 or more) 2′-deoxy, 2′-O-methyl, 2′-deoxy-2′-fluoro, and/or one or more (e.g., about 1, 2, 3, 4, 5, 6, 7, 8, 9, 10 or more) universal base modified nucleotides, and optionally a terminal cap molecule at the 3′-end, the 5′-end, or both of the 3′- and 5′-ends of the antisense strand. A nucleic acid molecule may include about 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, or more, pyrimidine nucleotides of the sense and/or antisense nucleic acid strand are chemically-modified with 2′-deoxy, 2′-O-methyl and/or 2′-deoxy-2′-fluoro nucleotides, with or without about 1 to about 5 or more, for example about 1, 2, 3, 4, 5, or more phosphorothioate internucleotide linkages and/or a terminal cap molecule at the 3′-end, the 5′-end, or both of the 3′- and 5′-ends, being present in the same or different strand.

A nucleic acid molecule may include about 1 to about 5 or more (specifically about 1, 2, 3, 4, 5 or more) phosphorothioate internucleotide linkages in each strand of the nucleic acid molecule.

A nucleic acid molecule may include 2′-5′ internucleotide linkages, for example at the 3′-end, the 5′-end, or both of the 3′- and 5′-ends of one or both nucleic acid sequence strands. In addition, the 2′-5′ internucleotide linkage(s) can be present at various other positions within one or both nucleic acid sequence strands, for example, about 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, or more including every internucleotide linkage of a pyrimidine nucleotide in one or both strands of the siNA molecule can include a 2′-5′ internucleotide linkage, or about 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, or more including every internucleotide linkage of a purine nucleotide in one or both strands of the siNA molecule can include a 2′-5′ internucleotide linkage.

A chemically-modified short interfering nucleic acid (siNA) molecule may include an antisense region, wherein any (e.g., one or more or all) pyrimidine nucleotides present in the antisense region are 2′-deoxy-2′-fluoro pyrimidine nucleotides (e.g., wherein all pyrimidine nucleotides are 2′-deoxy-2′-fluoro pyrimidine nucleotides or alternately a plurality of pyrimidine nucleotides are 2′-deoxy-2′-fluoro pyrimidine nucleotides), and wherein any (e.g., one or more or all) purine nucleotides present in the antisense region are 2′-deoxy purine nucleotides (e.g., wherein all purine nucleotides are 2′-deoxy purine nucleotides or alternately a plurality of purine nucleotides are 2′-deoxy purine nucleotides).

A chemically-modified short interfering nucleic acid (siNA) molecule may include an antisense region, wherein any (e.g., one or more or all) pyrimidine nucleotides present in the antisense region are 2′-deoxy-2′-fluoro pyrimidine nucleotides (e.g., wherein all pyrimidine nucleotides are 2′-deoxy-2′-fluoro pyrimidine nucleotides or alternately a plurality of pyrimidine nucleotides are 2′-deoxy-2′-fluoro pyrimidine nucleotides), and wherein any (e.g., one or more or all) purine nucleotides present in the antisense region are 2′-O-methyl purine nucleotides (e.g., wherein all purine nucleotides are 2′-O-methyl purine nucleotides or alternately a plurality of purine nucleotides are 2′-O-methyl purine nucleotides).

A chemically-modified short interfering nucleic acid (siNA) molecule capable of mediating RNA interference (RNAi) against TIMP1 and TIMP2 inside a cell or reconstituted in vitro system may include a sense region, wherein one or more pyrimidine nucleotides present in the sense region are 2′-deoxy-2′-fluoro pyrimidine nucleotides (e.g., wherein all pyrimidine nucleotides are 2′-deoxy-2′-fluoro pyrimidine nucleotides or alternately a plurality of pyrimidine nucleotides are 2′-deoxy-2′-fluoro pyrimidine nucleotides), and one or more purine nucleotides present in the sense region are 2′-deoxy purine nucleotides (e.g., wherein all purine nucleotides are 2′-deoxy purine nucleotides or alternately a plurality of purine nucleotides are 2′-deoxy purine nucleotides), and an antisense region, wherein one or more pyrimidine nucleotides present in the antisense region are 2′-deoxy-2′-fluoro pyrimidine nucleotides (e.g., wherein all pyrimidine nucleotides are 2′-deoxy-2′-fluoro pyrimidine nucleotides or alternately a plurality of pyrimidine nucleotides are 2′-deoxy-2′-fluoro pyrimidine nucleotides), and one or more purine nucleotides present in the antisense region are 2′-O-methyl purine nucleotides (e.g., wherein all purine nucleotides are 2′-O-methyl purine nucleotides or alternately a plurality of purine nucleotides are 2′-O-methyl purine nucleotides). The sense region and/or the antisense region can have a terminal cap modification, such as any modification, that is optionally present at the 3′-end, the 5′-end, or both of the 3′ and 5′-ends of the sense and/or antisense sequence. The sense and/or antisense region can optionally further include a 3′-terminal nucleotide overhang having about 1 to about 4 (e.g., about 1, 2, 3, or 4) 2′-deoxyribonucleotides. The overhang nucleotides can further include one or more (e.g., about 1, 2, 3, 4 or more) phosphorothioate, phosphonoacetate, and/or thiophosphonoacetate internucleotide linkages. The purine nucleotides in the sense region may alternatively be 2′-O-methyl purine nucleotides (e.g., wherein all purine nucleotides are 2′-O-methyl purine nucleotides or alternately a plurality of purine nucleotides are 2′-O-methyl purine nucleotides) and one or more purine nucleotides present in the antisense region are 2′-O-methyl purine nucleotides (e.g., wherein all purine nucleotides are 2′-O-methyl purine nucleotides or alternately a plurality of purine nucleotides are 2′-O-methyl purine nucleotides). One or more purine nucleotides in the sense region may alternatively be purine ribonucleotides (e.g., wherein all purine nucleotides are purine ribonucleotides or alternately a plurality of purine nucleotides are purine ribonucleotides) and any purine nucleotides present in the antisense region are 2′-O-methyl purine nucleotides (e.g., wherein all purine nucleotides are 2′-O-methyl purine nucleotides or alternately a plurality of purine nucleotides are 2′-O-methyl purine nucleotides). One or more purine nucleotides in the sense region and/or present in the antisense region may alternatively selected from the group consisting of 2′-deoxy nucleotides, locked nucleic acid (LNA) nucleotides, 2′-methoxyethyl nucleotides, 4′-thionucleotides, and 2′-O-methyl nucleotides (e.g., wherein all purine nucleotides are selected from the group consisting of 2′-deoxy nucleotides, locked nucleic acid (LNA) nucleotides, 2′-methoxyethyl nucleotides, 4′-thionucleotides, and 2′-O-methyl nucleotides or alternately a plurality of purine nucleotides are selected from the group consisting of 2′-deoxy nucleotides, locked nucleic acid (LNA) nucleotides, 2′-methoxyethyl nucleotides, 4′-thionucleotides, and 2′-O-methyl nucleotides).

In some embodiments, a nucleic acid molecule (e.g., a siNA molecule) as described herein includes a modified nucleotide (for example one modified nucleotide) in the antisense strand; for example in position 6 or position 7 of the antisense strand.

Modification Patterns and Alternating Modifications

Nucleic acid molecules (e.g., siNA molecules) provided herein may have patterns of modified and unmodified nucleic acids. A pattern of modification of the nucleotides in a contiguous stretch of nucleotides may be a modification contained within a single nucleotide or group of nucleotides that are covalently linked to each other via standard phosphodiester bonds or, at least partially, through phosphorothioate bonds. Accordingly, a “pattern” as contemplated herein, does not necessarily need to involve repeating units, although it may. Examples of modification patterns that may be used in conjunction with the nucleic acid molecules (e.g., siNA molecules) provided herein include those disclosed in Giese, U.S. Pat. No. 7,452,987. For example, nucleic acid molecules (e.g., siNA molecules) provided herein include those having modification patters such as, similar to, or the same as, the patterns shown diagrammatically in FIG. 2 of the Giese U.S. Pat. No. 7,452,987.

A modified nucleotide or group of modified nucleotides may be at the 5′-end or 3′-end of the sense or antisense strand, a flanking nucleotide or group of nucleotides is arrayed on both sides of the modified nucleotide or group, where the flanking nucleotide or group either is unmodified or does not have the same modification of the preceding nucleotide or group of nucleotides. The flanking nucleotide or group of nucleotides may, however, have a different modification. This sequence of modified nucleotide or group of modified nucleotides, respectively, and unmodified or differently modified nucleotide or group of unmodified or differently modified nucleotides may be repeated one or more times.

In some patterns, the 5′-terminal nucleotide of a strand is a modified nucleotide while in other patterns the 5′-terminal nucleotide of a strand is an unmodified nucleotide. In some patterns, the 5′-end of a strand starts with a group of modified nucleotides while in other patterns, the 5′-terminal end is an unmodified group of nucleotides. This pattern may be either on the first stretch or the second stretch of the nucleic acid molecule or on both.

Modified nucleotides of one strand of the nucleic acid molecule may be complementary in position to the modified or unmodified nucleotides or groups of nucleotides of the other strand.

There may be a phase shift between modifications or patterns of modifications on one strand relative to the pattern of modification of the other strand such that the modification groups do not overlap. In one instance, the shift is such that the modified group of nucleotides of the sense strand corresponds to the unmodified group of nucleotides of the antisense strand and vice versa.

There may be a partial shift of the pattern of modification such that the modified groups overlap. The groups of modified nucleotides in any given strand may optionally be the same length, but may be of different lengths. Similarly, groups of unmodified nucleotides in any given strand may optionally be the same length, or of different lengths.

In some patterns, the second (penultimate) nucleotide at the terminus of the strand, is an unmodified nucleotide or the beginning of group of unmodified nucleotides. Preferably, this unmodified nucleotide or unmodified group of nucleotides is located at the 5′-end of the either or both the sense and antisense strands and even more preferably at the terminus of the sense strand. An unmodified nucleotide or unmodified group of nucleotide may be located at the 5′-end of the sense strand. In a preferred embodiment the pattern consists of alternating single modified and unmodified nucleotides.

In some double stranded nucleic acid molecules include a 2′-O-methyl modified nucleotide and a non-modified nucleotide, preferably a nucleotide which is not 2′-O-methyl modified, are incorporated on both strands in an alternating fashion, resulting in a pattern of alternating 2′-O-methyl modified nucleotides and nucleotides that are either unmodified or at least do not include a 2′-O-methyl modification. In certain embodiments, the same sequence of 2′-O-methyl modification and non-modification exists on the second strand; in other embodiments the alternating 2′-O-methyl modified nucleotides are only present in the sense strand and are not present in the antisense strand; and in yet other embodiments the alternating 2′-O-methyl modified nucleotides are only present in the sense strand and are not present in the antisense strand. In certain embodiments, there is a phase shift between the two strands such that the 2′-O-methyl modified nucleotide on the first strand base pairs with a non-modified nucleotide(s) on the second strand and vice versa. This particular arrangement, i.e. base pairing of 2′-O-methyl modified and non-modified nucleotide(s) on both strands is particularly preferred in certain embodiments. In certain embodiments, the pattern of alternating 2′-O-methyl modified nucleotides exists throughout the entire nucleic acid molecule; or the entire duplex region. In other embodiments the pattern of alternating 2′-O-methyl modified nucleotides exists only in a portion of the nucleic acid; or the entire duplex region.

In “phase shift” patterns, it may be preferred if the antisense strand starts with a 2′-O-methyl modified nucleotide at the 5′ end whereby consequently the second nucleotide is non-modified, the third, fifth, seventh and so on nucleotides are thus again 2′-O-methyl modified whereas the second, fourth, sixth, eighth and the like nucleotides are non-modified nucleotides.

Exemplary Modification Locations and Patterns

While exemplary patterns are provided in more detail below, all permutations of patterns with of all possible characteristics of the nucleic acid molecules disclosed herein and those known in the art are contemplated (e.g., characteristics include, but are not limited to, length of sense strand, length of antisense strand, length of duplex region, length of hangover, whether one or both ends of a double stranded nucleic acid molecule is blunt or has an overhang, location of modified nucleic acid, number of modified nucleic acids, types of modifications, whether a double overhang nucleic acid molecule has the same or different number of nucleotides on the overhang of each side, whether a one or more than one type of modification is used in a nucleic acid molecule, and number of contiguous modified/unmodified nucleotides). With respect to all detailed examples provided below, while the duplex region is shown to be 19 nucleotides, the nucleic acid molecules provided herein can have a duplex region ranging from 1 to 49 nucleotides in length as each strand of a duplex region can independently be 17-49 nucleotides in length Exemplary patterns are provided herein.

Nucleic acid molecules may have a blunt end (when n is 0) on both ends that include a single or contiguous set of modified nucleic acids. The modified nucleic acid may be located at any position along either the sense or antisense strand. Nucleic acid molecules may include a group of about 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48 or 49 contiguous modified nucleotides. Modified nucleic acids may make up 1%, 2%, 3%, 5%, 10%, 15%, 20%, 25%, 30%, 35%, 40%, 45%, 50%, 55%, 60%, 65%, 70%, 75%, 80%, 85%, 90%, 95%, 97%, 98% or 100% of a nucleic acid strand. Modified nucleic acids of the examples immediately below may be in the sense strand only, the antisense strand only, or in both the sense and antisense strand.

General nucleic acid patters are shown below where X=sense strand nucleotide in the duplex region; X_(a)=5′-overhang nucleotide in the sense strand; X_(b)=3′-overhang nucleotide in the sense strand; Y=antisense strand nucleotide in the duplex region; Y_(a)=3′-overhang nucleotide in the antisense strand; Y_(b)=5′-overhang nucleotide in the antisense strand; and M=a modified nucleotide in the duplex region. Each a and b are independently 0 to 8 (e.g., 0, 1, 2, 3, 4, 5, 6, 7 or 8). Each X, Y, a and b are independently modified or unmodified. The sense and antisense strands can are each independently 17-49 nucleotides in length. The examples provided below have a duplex region of 19 nucleotides; however, nucleic acid molecules disclosed herein can have a duplex region anywhere between 17 and 49 nucleotides and where each strand is independently between 17 and 49 nucleotides in length.

5′ X_(a)XXXXXXXXXXXXXXXXXXXX_(b) 3′ Y_(b)YYYYYYYYYYYYYYYYYYYY_(a)

Further exemplary nucleic acid molecule patterns are shown below where X=unmodified sense strand nucleotides; x=an unmodified overhang nucleotide in the sense strand; Y=unmodified antisense strand nucleotides; y=an unmodified overhang nucleotide in the antisense strand; and M=a modified nucleotide. The sense and antisense strands can are each independently 17-49 nucleotides in length. The examples provided below have a duplex region of 19 nucleotides; however, nucleic acid molecules disclosed herein can have a duplex region anywhere between 17 and 49 nucleotides and where each strand is independently between 17 and 49 nucleotides in length.

5′

XXXXXXXXXMXXXXXXXXX

3′

YYYYYYYYYYYYYYYYYYY

5′ XXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYMYYYYYYYYY 5′ XXXXXXXXMMXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYMMYYYYYYYYY 5′ XXXXXXXXXMXXXXXXXXX 3′ YYYYYYYYYMYYYYYYYYY 5′ XXXXXMXXXXXXXXXXXXX 3′ YYYYYYYYYMYYYYYYYYY 5′ MXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYMYYYYYY 5′ XXXXXXXXXXXXXXXXXXM 3′ YYYYYMYYYYYYYYYYYYY 5′ XXXXXXXXXMXXXXXXXX 3′ MYYYYYYYYYYYYYYYYY 5′ XXXXXXXMXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYM 5′ XXXXXXXXXXXXXMXXXX 3′ MYYYYYYYYYYYYYYYYY 5′ MMMMMMMMMMMMMMMMMM 3′ MMMMMMMMMMMMMMMMMM

Nucleic acid molecules may have blunt ends on both ends with alternating modified nucleic acids. The modified nucleic acids may be located at any position along either the sense or antisense strand.

5′ MXMXMXMXMXMXMXMXMXM 3′ YMYMYMYMYMYMYMYMYMY 5′ XMXMXMXMXMXMXMXMXMX 3′ MYMYMYMYMYMYMYMYMYM 5′ MMXMMXMMXMMXMMXMMXM 3′ YMMYMMYMMYMMYMMYMMY 5′ XMMXMMXMMXMMXMMXMMX 3′ MMYMMYMMYMMYMMYMMYM 5′ MMMXMMMXMMMXMMMXMMM 3′ YMMMYMMMYMMMYMMMYMM 5′ XMMMXMMMXMMMXMMMXMM 3′ MMMYMMMYMMMYMMMYMMM

Nucleic acid molecules with a blunt 5′-end and 3′-end overhang end with a single modified nucleic acid.

Nucleic acid molecules with a 5′-end overhang and a blunt 3′-end with a single modified nucleic acid.

Nucleic acid molecules with overhangs on both ends and all overhangs are modified nucleic acids. In the pattern immediately below, M is n number of modified nucleic acids, where n is an integer from 0 to 8 (i.e., 0, 1, 2, 3, 4, 5, 6, 7 and 8).

5′ XXXXXXXXXXXXXXXXXXXM 3′ MYYYYYYYYYYYYYYYYYYY

Nucleic acid molecules with overhangs on both ends and some overhang nucleotides are modified nucleotides. In the patterns immediately below, M is n number of modified nucleotides, x is n number of unmodified overhang nucleotides in the sense strand, y is n number of unmodified overhang nucleotides in the antisense strand, where each n is independently an integer from 0 to 8 (i.e., 0, 1, 2, 3, 4, 5, 6, 7 and 8), and where each overhang is maximum of 20 nucleotides; preferably a maximum of 8 nucleotides (modified and/or unmodified).

5′ XXXXXXXXXXXXXXXXXXXM 3′ yYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMx 3′ yYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMxM 3′ yYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMxMx 3′ yYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMxMxM 3′ yYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMxMxMx 3′ yYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMxMxMxM 3′ yYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMxMxMxMx 3′ yYYYYYYYYYYYYYYYYYYY 5′ MXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYy 5′ xMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYy 5′ MxMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYy 5′ xMxMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYy 5′ MxMxMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYy 5′ xMxMxMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYy 5′ MxMxMxMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYy 5′ xMxMxMxMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYy 5′ xXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYM 5′ xXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYMy 5′ xXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYMyM 5′ xXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYMyMy 5′ xXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYMyMyM 5′ xXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYMyMyMy 5′ xXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYMyMyMyM 5′ xXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYYMyMyMyMy 5′ XXXXXXXXXXXXXXXXXXXx 3′ MYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXx 3′ yMYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXx 3′ MyMYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXx 3′ yMyMYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXx 3′ MyMyMYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXx 3′ yMyMyMYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXx 3′ MyMyMyMYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXx 3′ yMyMyMyMYYYYYYYYYYYYYYYYYYY

Modified nucleotides at the 3′ end of the sense region.

5′ XXXXXXXXXXXXXXXXXXXM 3′ YYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMM 3′ YYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMMM 3′ YYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMMMM 3′ YYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMMMMM 3′ YYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMMMMMM 3′ YYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMMMMMMMM 3′ YYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMMMMMMMM 3′ YYYYYYYYYYYYYYYYYYY

Overhang at the 5′ end of the sense region.

5′ MXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYY 5′ MMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYY 5′ MMMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYY 5′ MMMMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYY 5′ MMMMMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYY 5′ MMMMMMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYY 5′ MMMMMMMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYY 5′ MMMMMMMMXXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYY

Overhang at the 3′ end of the antisense region.

5′ XXXXXXXXXXXXXXXXXXX 3′ MYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXX 3′ MMYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXX 3′ MMMYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXX 3′ MMMMYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXX 3′ MMMMMYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXX 3′ MMMMMMYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXX 3′ MMMMMMMYYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXX 3′ MMMMMMMMYYYYYYYYYYYYYYYYYYY

Modified nucleotide(s) within the sense region

5′ XXXXXXXXXMXXXXXXXXX 3′ YYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXX 3′ YYYYYYYYYMYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXXMM 3′ YYYYYYYYYYYYYYYYYYY 5′ XXXXXXXXXXXXXXXXXXX 3′ MMYYYYYYYYYYYYYYYYYYY

Exemplary nucleic acid molecules are provided below with the equivalent general structure in line with the symbols used above. The following duplexes are in accordance with the pattern:

5′ XXXXXXXXXXXXXXXXXXXMM 3′ MMYYYYYYYYYYYYYYYYYYY

TIMP1-A siRNA to human, mouse, rat and rhesus TIMP1 having a 19 nucleotide (i.e., 19mer) duplex region and modified 2 nucleotide (i.e., deoxynucleotide) overhangs at the 3′-ends of the sense and antisense strands.

5′ CCACCUUAUACCAGCGUUATT 3′ 3′ TTGGUGGAAUAUGGUCGCAAU 5′

TIMP1-B siRNA to human and rhesus TIMP1 having a 19 nucleotide (i.e., 19mer) duplex region and modified 2 nucleotide (i.e., deoxynucleotide) overhangs at the 3′-ends of the sense and antisense strands.

5′ CACUGUUGGCUGUGAGGAATT 3′ 3′ TTGUGACAACCGACACUCCUU 5′

TIMP1-C siRNA to human, mouse, rat and rhesus TIMP1 having a 19 nucleotide (i.e., 19mer) duplex region and modified 2 nucleotide (i.e., deoxynucleotide) overhangs at the 3′-ends of the sense and antisense strands.

5′ GGAAUAUCUCAUUGCAGGATT 3′ 3′ TTCCUUAUAGAGUAACGUCCU 5′

TIMP2-A siRNA to human TIMP2 having a 19 nucleotide (i.e., 19mer) duplex region and modified 2 nucleotide (i.e., deoxynucleotide) overhangs at the 3′-ends of the sense and antisense strands.

5′ UGCAGAUGUAGUGAUCAGGTT 3′ 3′ TTACGUCUACAUCACUAGUCC 5′

TIMP2-B siRNA to human, rhesus and rabbit TIMP2 having a 19 nucleotide (i.e., 19mer) duplex region and modified 2 nucleotide (i.e., deoxynucleotide) overhangs at the 3′-ends of the sense and antisense strands.

5′ GAGGAUCCAGUAUGAGAUCTT 3′ 3′ TTCUCCUAGGUCAUACUCUAG 5′

TIMP2-C siRNA to human, mouse, rat, cow, dog and pig TIMP2 having a 19 nucleotide (i.e., 19mer) duplex region and modified 2 nucleotide (i.e., deoxynucleotide) overhangs at the 3′-ends of the sense and antisense strands.

5′ GCAGAUAAAGAUGUUCAAATT 3′ 3′ TTCGUCUAUUUCUACAAGUUU 5′

TIMP2-D siRNA to human TIMP2 having a 19 nucleotide (i.e., 19mer) duplex region and modified 2 nucleotide (i.e., deoxynucleotide) overhangs at the 3′-ends of the sense and antisense strands.

5′ UAUCUCAUUGCAGGAAAGGTT 3′ 3′ TTAUAGAGUAACGUCCUUUCC 5′

TIMP2-E siRNA to human TIMP2 having a 19 nucleotide (i.e., 19mer) duplex region and modified 2 nucleotide (i.e., deoxynucleotide) overhangs at the 3′-ends of the sense and antisense strands.

5′ GCACAGUGUUUCCCUGUUUTT 3′ 3′ TTCGUGUCACAAAGGGACAAA 5′

Nicks and Gaps in Nucleic Acid Strands

Nucleic acid molecules (e.g., siNA molecules) provided herein may have a strand, preferably the sense strand, that is nicked or gapped. As such, nucleic acid molecules may have three or more strand, for example, such as a meroduplex RNA (mdRNA) disclosed in International Patent Application No. PCT/US07/081,836. Nucleic acid molecules with a nicked or gapped strand may be between about 1-49 nucleotides, or may be RISC length (e.g., about 15 to 25 nucleotides) or Dicer substrate length (e.g., about 25 to 30 nucleotides) such as disclosed herein.

Nucleic acid molecules with three or more strands include, for example, an ‘A’ (antisense) strand, ‘S1’ (second) strand, and ‘S2’ (third) strand in which the ‘S1’ and ‘S2’ strands are complementary to and form base pairs with non-overlapping regions of the ‘A’ strand (e.g., an mdRNA can have the form of A:S1S2). The S1, S2, or more strands together form what is substantially similar to a sense strand to the ‘A’ antisense strand. The double-stranded region formed by the annealing of the ‘S1’ and ‘A’ strands is distinct from and non-overlapping with the double-stranded region formed by the annealing of the ‘S2’ and ‘A’ strands. An nucleic acid molecule (e.g., an siNA molecule) may be a “gapped” molecule, meaning a “gap” ranging from 0 nucleotides up to about 10 nucleotides (e.g., 0, 1, 2, 3, 4, 5, 6, 7, 8, 9 or 10 nucleotides). Preferably, the sense strand is gapped. In some embodiments, the A:S1 duplex is separated from the A:S2 duplex by a gap resulting from at least one unpaired nucleotide (up to about 10 unpaired nucleotides) in the ‘A’ strand that is positioned between the A:S1 duplex and the A:S2 duplex and that is distinct from any one or more unpaired nucleotide at the 3′-end of one or more of the ‘A’, ‘S1’, or ‘S2 strands. The A:S1 duplex may be separated from the A:B2 duplex by a gap of zero nucleotides (i.e., a nick in which only a phosphodiester bond between two nucleotides is broken or missing in the polynucleotide molecule) between the A:S1 duplex and the A:S2 duplex-which can also be referred to as nicked dsRNA (ndsRNA). For example, A:S1S2 may be include a dsRNA having at least two double-stranded regions that combined total about 14 base pairs to about 40 base pairs and the double-stranded regions are separated by a gap of about 0 to about 10 nucleotides, optionally having blunt ends, or A:S1S2 may include a dsRNA having at least two double-stranded regions separated by a gap of up to 10 nucleotides wherein at least one of the double-stranded regions includes between about 5 base pairs and 13 base pairs.

Dicer Substrates

In certain embodiments, the nucleic acid molecules (e.g., siNA molecules) provided herein may be a precursor “Dicer substrate” molecule, e.g., double stranded nucleic acid, processed in vivo to produce an active nucleic acid molecules, for example as described in Rossi, US Patent App. No. 20050244858. In certain conditions and situations, it has been found that these relatively longer dsRNA siNA species, e.g., of from about 25 to about 30 nucleotides, can give unexpectedly effective results in terms of potency and duration of action. Without wishing to be bound by any particular theory, it is thought that the longer dsRNA species serve as a substrate for the enzyme Dicer in the cytoplasm of a cell. In addition to cleaving double stranded nucleic acid into shorter segments, Dicer may facilitate the incorporation of a single-stranded cleavage product derived from the cleaved dsRNA into the RNA-induced silencing complex (RISC complex) that is responsible for the destruction of the cytoplasmic RNA derived from the target gene.

Dicer substrates may have certain properties which enhance its processing by Dicer. Dicer substrates are of a length sufficient such that it is processed by Dicer to produce an active nucleic acid molecule and may further include one or more of the following properties: (i) the dsRNA is asymmetric, e.g., has a 3′ overhang on the first strand (antisense strand) and (ii) the dsRNA has a modified 3′ end on the antisense strand (sense strand) to direct orientation of Dicer binding and processing of the dsRNA to an active siRNA. In certain embodiments, the longest strand in the Dicer substrate may be 24-30 nucleotides.

Dicer substrates may be symmetric or asymmetric. The Dicer substrate may have a sense strand includes 22-28 nucleotides and the antisense strand may include 24-30 nucleotides; thus, in some embodiments the resulting Dicer substrate may have an overhang on the 3′ end of the antisense strand. Dicer substrate may have a sense strand 25 nucleotides in length, and the antisense strand having 27 nucleotides in length with a 2 base 3′-overhang. The overhang may be 1-3 nucleotides, for example 2 nucleotides. The sense strand may also have a 5′ phosphate.

An asymmetric Dicer substrate may further contain two deoxyribonucleotides at the 3′-end of the sense strand in place of two of the ribonucleotides. Some exemplary Dicer substrates lengths and structures are 21+0, 21+2, 21−2, 22+0, 22+1, 22−1, 23+0, 23+2, 23−2, 24+0, 24+2, 24−2, 25+0, 25+2, 25−2, 26+0, 26+2, 26−2, 27+0, 27+2, and 27−2.

The sense strand of a Dicer substrate may be between about 22 to about 30 (e.g., about 22, 23, 24, 25, 26, 27, 28, 29 or 30); about 22 to about 28; about 24 to about 30; about 25 to about 30; about 26 to about 30; about 26 and 29; or about 27 to about 28 nucleotides in length. In certain preferred embodiments Dicer substrates contain sense and antisense strands, that are at least about 25 nucleotides in length and no longer than about 30 nucleotides; between about 26 and 29 nucleotides; or 27 nucleotides in length. The sense and antisense strands may be the same length (blunt ended), different lengths (have overhangs), or a combination. The sense and antisense strands may exist on the same polynucleotide or on different polynucleotides. A Dicer substrate may have a duplex region of about 19, 20, 21, 22, 23, 24, 25 or 27 nucleotides.

Like other siNA molecules provided herein, the antisense strand of a Dicer substrate may have any sequence that anneals to the antisense strand under biological conditions, such as within the cytoplasm of a eukaryotic cell.

Dicer substrates may have any modifications to the nucleotide base, sugar or phosphate backbone as known in the art and/or as described herein for other nucleic acid molecules (such as siNA molecules). In certain embodiments, Dicer substrates may have a sense strand is modified for Dicer processing by suitable modifiers located at the 3′ end of the sense strand, i.e., the dsRNA is designed to direct orientation of Dicer binding and processing. Suitable modifiers include nucleotides such as deoxyribonucleotides, dideoxyribonucleotides, acyclonucleotides and the like and sterically hindered molecules, such as fluorescent molecules and the like. Acyclonucleotides substitute a 2-hydroxyethoxymethyl group for-the 2′-deoxyribofuranosyl sugar normally present in dNMPs. Other nucleotides modifiers that could be used in Dicer substrate siNA molecules include 3′-deoxyadenosine (cordycepin), 3′-azido-3′-deoxythymidine (AZT), 2′,3′-dideoxyinosine (ddI), 2′,3′-dideoxy-3′-thiacytidine (3TC), 2′,3′-didehydro-2′,3′-dideoxythymidi-ne (d4T) and the monophosphate nucleotides of 3′-azido-3′-deoxythymidine (AZT), 2′,3′-dideoxy-3′-thiacytidine (3TC) and 2′,3′-didehydro-2′,3′-dide-oxythymidine (d4T). In one embodiment, deoxyribonucleotides are used as the modifiers. When nucleotide modifiers are utilized, they may replace ribonucleotides (e.g., 1-3 nucleotide modifiers, or 2 nucleotide modifiers are substituted for the ribonucleotides on the 3′ end of the sense strand) such that the length of the Dicer substrate does not change. When sterically hindered molecules are utilized, they may be attached to the ribonucleotide at the 3′ end of the antisense strand. Thus, in certain embodiments the length of the strand does not change with the incorporation of the modifiers. In certain embodiments, two DNA bases in the dsRNA are substituted to direct the orientation of Dicer processing of the antisense strand. In a further embodiment of, two terminal DNA bases are substituted for two ribonucleotides on the 3′-end of the sense strand forming a blunt end of the duplex on the 3′ end of the sense strand and the 5′ end of the antisense strand, and a two-nucleotide RNA overhang is located on the 3′-end of the antisense strand. This is an asymmetric composition with DNA on the blunt end and RNA bases on the overhanging end.

In certain embodiments modifications are included in the Dicer substrate such that the modification does not prevent the nucleic acid molecule from serving as a substrate for Dicer. In one embodiment, one or more modifications are made that enhance Dicer processing of the Dicer substrate. One or more modifications may be made that result in more effective RNAi generation. One or more modifications may be made that support a greater RNAi effect. One or more modifications are made that result in greater potency per each Dicer substrate to be delivered to the cell. Modifications may be incorporated in the 3′-terminal region, the 5′-terminal region, in both the 3′-terminal and 5′-terminal region or at various positions within the sequence. Any number and combination of modifications can be incorporated into the Dicer substrate so long as the modification does not prevent the nucleic acid molecule from serving as a substrate for Dicer. Where multiple modifications are present, they may be the same or different. Modifications to bases, sugar moieties, the phosphate backbone, and their combinations are contemplated. Either 5′-terminus can be phosphorylated.

Examples of Dicer substrate phosphate backbone modifications include phosphonates, including methylphosphonate, phosphorothioate, and phosphotriester modifications such as alkylphosphotriesters, and the like. Examples of Dicer substrate sugar moiety modifications include 2′-alkyl pyrimidine, such as 2′-O-methyl, 2′-fluoro, amino, and deoxy modifications and the like (see, e.g., Amarzguioui et al., 2003). Examples of Dicer substrate base group modifications include abasic sugars, 2-O-alkyl modified pyrimidines, 4-thiouracil, 5-bromouracil, 5-iodouracil, and 5-(3-aminoallyl)-uracil and the like. Locked nucleic acids, or LNA's, could also be incorporated.

The sense strand may be modified for Dicer processing by suitable modifiers located at the 3′ end of the sense strand, i.e., the Dicer substrate is designed to direct orientation of Dicer binding and processing. Suitable modifiers include nucleotides such as deoxyribonucleotides, dideoxyribonucleotides, acyclonucleotides and the like and sterically hindered molecules, such as fluorescent molecules and the like. Acyclonucleotides substitute a 2-hydroxyethoxymethyl group for-the 2′-deoxyribofuranosyl sugar normally present in dNMPs. Other nucleotides modifiers could include 3′-deoxyadenosine (cordycepin), 3′-azido-3′-deoxythymidine (AZT), 2′,3′-dideoxyinosine (ddI), 2′,3′-dideoxy-3′-thiacytidine (3TC), 2′,3′-didehydro-2′,3′-dideoxythymidi-ne (d4T) and the monophosphate nucleotides of 3′-azido-3′-deoxythymidine (AZT), 2′,3′-dideoxy-3′-thiacytidine (3TC) and 2′,3′-didehydro-2′,3′-dide-oxythymidine (d4T). In one embodiment, deoxyribonucleotides are used as the modifiers. When nucleotide modifiers are utilized, 1-3 nucleotide modifiers, or 2 nucleotide modifiers are substituted for the ribonucleotides on the 3′ end of the sense strand. When sterically hindered molecules are utilized, they are attached to the ribonucleotide at the 3′ end of the antisense strand. Thus, the length of the strand does not change with the incorporation of the modifiers. In another embodiment, substituting two DNA bases in the Dicer substrate to direct the orientation of Dicer processing of the antisense strand is contemplated. In a further embodiment of the present invention, two terminal DNA bases are substituted for two ribonucleotides on the 3′-end of the sense strand forming a blunt end of the duplex on the 3′ end of the sense strand and the 5′ end of the antisense strand, and a two-nucleotide RNA overhang is located on the 3′-end of the antisense strand. This is an asymmetric composition with DNA on the blunt end and RNA bases on the overhanging end.

The antisense strand may be modified for Dicer processing by suitable modifiers located at the 3′ end of the antisense strand, i.e., the dsRNA is designed to direct orientation of Dicer binding and processing. Suitable modifiers include nucleotides such as deoxyribonucleotides, dideoxyribonucleotides, acyclonucleotides and the like and sterically hindered molecules, such as fluorescent molecules and the like. Acyclonucleotides substitute a 2-hydroxyethoxymethyl group for the 2′-deoxyribofuranosyl sugar normally present in dNMPs. Other nucleotide modifiers could include 3′-deoxyadenosine (cordycepin), 3′-azido-3′-deoxythymidine (AZT), 2′,3′-dideoxyinosine (ddI), 2′,3′-dideoxy-3′-thiacytidine (3TC), 2′,3′-didehydro-2′,3′-dideoxythymidi-ne (d4T) and the monophosphate nucleotides of 3′-azido-3′-deoxythymidine (AZT), 2′,3′-dideoxy-3′-thiacytidine (3TC) and 2′,3′-didehydro-2′,3′-dide-oxythymidine (d4T). In one embodiment, deoxyribonucleotides are used as the modifiers. When nucleotide modifiers are utilized, 1-3 nucleotide modifiers, or 2 nucleotide modifiers are substituted for the ribonucleotides on the 3′ end of the antisense strand. When sterically hindered molecules are utilized, they are attached to the ribonucleotide at the 3′ end of the antisense strand. Thus, the length of the strand does not change with the incorporation of the modifiers. In another embodiment, the two DNA bases in the dsRNA may be substituted to direct the orientation of Dicer processing. In a further embodiment, two terminal DNA bases are located on the 3′ end of the antisense strand in place of two ribonucleotides forming a blunt end of the duplex on the 5′ end of the sense strand and the 3′ end of the antisense strand, and a two-nucleotide RNA overhang is located on the 3′-end of the sense strand. This is an asymmetric composition with DNA on the blunt end and RNA bases on the overhanging end.

Dicer substrates with a sense and an antisense strand can be linked by a third structure. The third structure will not block Dicer activity on the Dicer substrate and will not interfere with the directed destruction of the RNA transcribed from the target gene. The third structure may be a chemical linking group. Suitable chemical linking groups are known in the art and can be used. Alternatively, the third structure may be an oligonucleotide that links the two oligonucleotides of the dsRNA is a manner such that a hairpin structure is produced upon annealing of the two oligonucleotides making up the Dicer substrate. The hairpin structure preferably does not block Dicer activity on the Dicer substrate or interfere with the directed destruction of the RNA transcribed from the target gene.

The sense and antisense strands of the Dicer substrate are not required to be completely complementary. They only need to be substantially complementary to anneal under biological conditions and to provide a substrate for Dicer that produces an siRNA sufficiently complementary to the target sequence.

Dicer substrate can have certain properties that enhance its processing by Dicer. The Dicer substrate can have a length sufficient such that it is processed by Dicer to produce an active nucleic acid molecules (e.g., siRNA) and may have one or more of the following properties: (i) the Dicer substrate is asymmetric, e.g., has a 3′ overhang on the first strand (antisense strand) and (ii) the Dicer substrate has a modified 3′ end on the second strand (sense strand) to direct orientation of Dicer binding and processing of the Dicer substrate to an active siRNA. The Dicer substrate can be asymmetric such that the sense strand includes 22-28 nucleotides and the antisense strand includes 24-30 nucleotides. Thus, the resulting Dicer substrate has an overhang on the 3′ end of the antisense strand. The overhang is 1-3 nucleotides, for example 2 nucleotides. The sense strand may also have a 5′ phosphate.

A Dicer substrate may have an overhang on the 3′ end of the antisense strand and the sense strand is modified for Dicer processing. The 5′ end of the sense strand may have a phosphate. The sense and antisense strands may anneal under biological conditions, such as the conditions found in the cytoplasm of a cell. A region of one of the strands, particularly the antisense strand, of the Dicer substrate may have a sequence length of at least 19 nucleotides, wherein these nucleotides are in the 21-nucleotide region adjacent to the 3′ end of the antisense strand and are sufficiently complementary to a nucleotide sequence of the RNA produced from the target gene. A Dicer substrate may also have one or more of the following additional properties: (a) the antisense strand has a right shift from a corresponding 21-mer (i.e., the antisense strand includes nucleotides on the right side of the molecule when compared to the corresponding 21-mer), (b) the strands may not be completely complementary, i.e., the strands may contain simple mismatch pairings and (c) base modifications such as locked nucleic acid(s) may be included in the 5′ end of the sense strand.

An antisense strand of a Dicer substrate nucleic acid molecule may be modified to include 1-9 ribonucleotides on the 5′-end to give a length of 22-28 nucleotides. When the antisense strand has a length of 21 nucleotides, then 1-7 ribonucleotides, or 2-5 ribonucleotides and or 4 ribonucleotides may be added on the 3′-end. The added ribonucleotides may have any sequence. Although the added ribonucleotides may be complementary to the target gene sequence, full complementarity between the target sequence and the antisense strands is not required. That is, the resultant antisense strand is sufficiently complementary with the target sequence. A sense strand may then have 24-30 nucleotides. The sense strand may be substantially complementary with the antisense strand to anneal to the antisense strand under biological conditions. In one embodiment, the antisense strand may be synthesized to contain a modified 3′-end to direct Dicer processing. The sense strand may have a 3′ overhang. The antisense strand may be synthesized to contain a modified 3′-end for Dicer binding and processing and the sense strand has a 3′ overhang.

TIMP1 and TIMP2

Exemplary nucleic acid sequence of target tissue inhibitors of metalloproteinase-1 and -2 (human TIMP1 and TIMP2) cDNA is disclosed in GenBank accession numbers: NM_(—)003454 and NM_(—)003455 and the corresponding mRNA sequence, for example as listed as SEQ ID NO: 1 and SEQ ID NO:2. One of ordinary skill in the art would understand that a given sequence may change over time and to incorporate any changes needed in the nucleic acid molecules herein accordingly.

Expression of TIMP1 and TIMP2 was shown to be increased in fibrotic liver from rats with hepatic fibrosis (Nie, et al 2004. World J. Gastroenterol. 10:86-90). TIMP1 and TIMP2 are potential targets for the treatment of fibrosis.

Methods and Compositions for Inhibiting TIMP1 and TIMP2

Provided are compositions and methods for inhibition of TIMP1 and TIMP2 expression by using small nucleic acid molecules, such as short interfering nucleic acid (siNA), interfering RNA (RNAi), short interfering RNA (siRNA), double-stranded RNA (dsRNA), micro-RNA (miRNA), and short hairpin RNA (shRNA) molecules capable of mediating or that mediate RNA interference against TIMP1 and TIMP2 gene expression. The composition and methods disclosed herein are also useful in treating various fibrosis such as liver fibrosis, lung fibrosis, kidney fibrosis and fibrotic conditions shown in Table I, supra.

Nucleic acid molecule(s) and/or methods as disclosed herein may be used to down regulate the expression of gene(s) that encode RNA referred to, by example, Genbank Accession NM_(—)003254.2 and NM_(—)004255.4.

Compositions, methods and kits provided herein may include one or more nucleic acid molecules (e.g., siNA) and methods that independently or in combination modulate (e.g., downregulate) the expression of TIMP1 and or TIMP2 protein and/or genes encoding TIMP1 and TIMP2 proteins, proteins and/or genes encoding TIMP1 and TIMP2 associated with the maintenance and/or development of diseases, conditions or disorders associated with TIMP1 and TIMP2, such as liver fibrosis, cirrhosis, pulmonary fibrosis, kidney fibrosis, peritoneal fibrosis, chronic hepatic damage, and fibrillogenesis (e.g., genes encoding sequences comprising those sequences referred to by GenBank Accession Nos. NM-003254 and NM_(—)003255), or a TIMP1 and TIMP2 gene family member where the genes or gene family sequences share sequence homology. The description of the various aspects and embodiments is provided with reference to exemplary genes TIMP1 and TIMP2. However, the various aspects and embodiments are also directed to other related TIMP1 and TIMP2 genes, such as homolog genes and transcript variants, and polymorphisms (e.g., single nucleotide polymorphism, (SNPs)) associated with certain TIMP1 and TIMP2 genes. As such, the various aspects and embodiments are also directed to other genes that are involved in TIMP1 and TIMP2 mediated pathways of signal transduction or gene expression that are involved, for example, in the maintenance or development of diseases, traits, or conditions described herein. These additional genes can be analyzed for target sites using the methods described for the TIMP1 and TIMP2 gene herein. Thus, the modulation of other genes and the effects of such modulation of the other genes can be performed, determined, and measured as described herein.

In one embodiment, compositions and methods provided herein include a double-stranded short interfering nucleic acid (siNA) molecule that down-regulates expression of a TIMP1 and TIMP2 gene (e.g., human TIMP1 and TIMP2 exemplified by SEQ ID NO:1 and SEQ ID NO:2, respectively), where the nucleic acid molecule includes about 15 to about 49 base pairs.

In one embodiment, a nucleic acid disclosed may be used to inhibit the expression of the TIMP1 and TIMP2 gene or a TIMP1 and TIMP2 gene family where the genes or gene family sequences share sequence homology. Such homologous sequences can be identified as is known in the art, for example using sequence alignments. Nucleic acid molecules can be designed to target such homologous sequences, for example using perfectly complementary sequences or by incorporating non-canonical base pairs, for example mismatches and/or wobble base pairs, that can provide additional target sequences. In instances where mismatches are identified, non-canonical base pairs (for example, mismatches and/or wobble bases) can be used to generate nucleic acid molecules that target more than one gene sequence. In a non-limiting example, non-canonical base pairs such as UU and CC base pairs are used to generate nucleic acid molecules that are capable of targeting sequences for differing TIMP1 and TIMP2 targets that share sequence homology. As such, one advantage of using siNAs disclosed herein is that a single nucleic acid can be designed to include nucleic acid sequence that is complementary to the nucleotide sequence that is conserved between the homologous genes. In this approach, a single nucleic acid can be used to inhibit expression of more than one gene instead of using more than one nucleic acid molecule to target the different genes.

Nucleic acid molecules may be used to target conserved sequences corresponding to a gene family or gene families such as TIMP1 and TIMP2 family genes. As such, nucleic acid molecules targeting multiple TIMP1 and TIMP2 targets can provide increased therapeutic effect. In addition, nucleic acid can be used to characterize pathways of gene function in a variety of applications. For example, nucleic acid molecules can be used to inhibit the activity of target gene(s) in a pathway to determine the function of uncharacterized gene(s) in gene function analysis, mRNA function analysis, or translational analysis. The nucleic acid molecules can be used to determine potential target gene pathways involved in various diseases and conditions toward pharmaceutical development. The nucleic acid molecules can be used to understand pathways of gene expression involved in, for example fibroses such as liver, kidney or pulmonary fibrosis, and/or inflammatory and proliferative traits, diseases, disorders, and/or conditions.

In one embodiment, the compositions and methods provided herein include a nucleic acid molecule having RNAi activity against TIMP1 RNA, where the nucleic acid molecule includes a sequence complementary to any RNA having TIMP1 encoding sequence. In another embodiment, a nucleic acid molecule may have RNAi activity against TIMP1 RNA, where the nucleic acid molecule includes a sequence complementary to an RNA having variant TIMP1 encoding sequence, for example other mutant TIMP1 genes known in the art to be associated with the maintenance and/or development of fibrosis. In another embodiment, a nucleic acid molecule disclosed herein includes a nucleotide sequence that can interact with nucleotide sequence of a TIMP1 gene and thereby mediate silencing of TIMP1 gene expression, for example, wherein the nucleic acid molecule mediates regulation of TIMP1 gene expression by cellular processes that modulate the chromatin structure or methylation patterns of the TIMP1 gene and prevent transcription of the TIMP1 gene.

In another embodiment the compositions and methods provided herein include a nucleic acid molecule having RNAi activity against TIMP2 RNA, where the nucleic acid molecule includes a sequence complementary to any RNA having TIMP2 encoding sequence, such as those sequences having GenBank Accession No. NM_(—)003455. Nucleic acid molecules may have RNAi activity against TIMP2 RNA, where the nucleic acid molecule includes a sequence complementary to an RNA having variant TIMP2 encoding sequence, for example other mutant TIMP2 genes known in the art to be associated with the maintenance and/or development of fibrosis. Nucleic acid molecules disclosed herein include a nucleotide sequence that can interact with nucleotide sequence of a TIMP2 gene and thereby mediate silencing of TIMP1 gene expression, e.g., where the nucleic acid molecule mediates regulation of TIMP2 gene expression by cellular processes that modulate the chromatin structure or methylation patterns of the TIMP2 gene and prevent transcription of the TIMP2 gene.

Methods of Treatment

In one embodiment, nucleic acid molecules may be used to down regulate or inhibit the expression of TIMP1 and/or TIMP1 proteins arising from TIMP1 and/or TIMP1 haplotype polymorphisms that are associated with a disease or condition, (e.g., fibrosis). Analysis of TIMP1 and/or TIMP1 genes, or TIMP1 and/or TIMP1 protein or RNA levels can be used to identify subjects with such polymorphisms or those subjects who are at risk of developing traits, conditions, or diseases described herein. These subjects are amenable to treatment, for example, treatment with nucleic acid molecules disclosed herein and any other composition useful in treating diseases related to TIMP1 and/or TIMP1 gene expression. As such, analysis of TIMP1 and/or TIMP1 protein or RNA levels can be used to determine treatment type and the course of therapy in treating a subject. Monitoring of TIMP1 and/or TIMP1 protein or RNA levels can be used to predict treatment outcome and to determine the efficacy of compounds and compositions that modulate the level and/or activity of certain TIMP1 and/or TIMP1 proteins associated with a trait, condition, or disease.

In one embodiment, nucleic acid molecules may be used to down regulate or inhibit the expression of TIMP2 and/or TIMP2 proteins arising from TIMP2 and/or TIMP2 haplotype polymorphisms that are associated with a disease or condition, (e.g., fibrosis). Analysis of TIMP2 and/or TIMP2 genes, or TIMP2 and/or TIMP2 protein or RNA levels can be used to identify subjects with such polymorphisms or those subjects who are at risk of developing traits, conditions, or diseases described herein. These subjects are amenable to treatment, for example, treatment with nucleic acid molecules disclosed herein and any other composition useful in treating diseases related to TIMP2 and/or TIMP2 gene expression. As such, analysis of TIMP2 and/or TIMP2 protein or RNA levels can be used to determine treatment type and the course of therapy in treating a subject. Monitoring of TIMP2 and/or TIMP2 protein or RNA levels can be used to predict treatment outcome and to determine the efficacy of compounds and compositions that modulate the level and/or activity of certain TIMP2 and/or TIMP2 proteins associated with a trait, condition, or disease.

Provided are compositions and methods for inhibition of TIMP1 and TIMP2 expression by using small nucleic acid molecules as provided herein, such as short interfering nucleic acid (siNA), interfering RNA (RNAi), short interfering RNA (siRNA), double-stranded RNA (dsRNA), micro-RNA (miRNA), and short hairpin RNA (shRNA) molecules capable of mediating or that mediate RNA interference against TIMP1 and TIMP2 gene expression. The composition and methods disclosed herein are also useful in treating various fibrosis such as liver fibrosis, lung fibrosis, and kidney fibrosis.

The nucleic acid molecules disclosed herein individually, or in combination or in conjunction with other drugs, can be use for preventing or treating diseases, traits, conditions and/or disorders associated with TIMP1 and TIMP2, such as liver fibrosis, cirrhosis, pulmonary fibrosis, kidney fibrosis, peritoneal fibrosis, chronic hepatic damage, and fibrillogenesis.

The nucleic acid molecules disclosed herein are able to inhibit the expression of TIMP1 or TIMP2 in a sequence specific manner. The nucleic acid molecules may include a sense strand and an antisense strand which include contiguous nucleotides that are at least partially complementary (antisense) to a TIMP1 or TIMP2 mRNA.

In some embodiments, dsRNA specific for TIMP1 or TIMP2 can be used in conjunction with other dsRNA specific for other molecular chaperones that assist in the folding of newly synthesized proteins such as, calnexin, calreticulin, BiP (Bergeron et al. Trends Biochem. Sci. 1994; 19:124-128; Herbert et al. 1995; Cold Spring Harb. Symp. Quant. Biol. 60:405-415)

Fibrosis can be treated by RNA interference using nucleic acid molecules as disclosed herein. Exemplary fibrosis include liver fibrosis, peritoneal fibrosis, lung fibrosis, kidney fibrosis, vocal cord fibrosis, intestinal fibrosis. The nucleic acid molecules disclosed herein may inhibit the expression of TIMP1 or TIMP2 in a sequence specific manner.

Treatment of fibrosis can be monitored by determining the level of extracellular collagen using suitable techniques known in the art such as, using anti-collagen I antibodies. Treatment can also be monitored by determining the level of TIMP1 or TIMP2 mRNA or the level of TIMP1 or TIMP2 protein in the cells of the affected tissue. Treatment can also be monitored by non-invasive scanning of the affected organ or tissue such as by computer assisted tomography scan, magnetic resonance elastography scans.

A method for treating or preventing TIMP1 associated disease or condition in a subject or organism may include contacting the subject or organism with a nucleic acid molecule as provided herein under conditions suitable to modulate the expression of the TIMP1 gene in the subject or organism.

A method for treating or preventing TIMP2 associated disease or condition in a subject or organism may include contacting the subject or organism with a nucleic acid molecule as provided herein under conditions suitable to modulate the expression of the TIMP2 gene in the subject or organism.

A method for treating or preventing fibrosis in a subject or organism may include contacting the subject or organism with a nucleic acid molecule under conditions suitable to modulate the expression of the TIMP1 and/or TIMP2 gene in the subject or organism.

A method for treating or preventing one or more fibroses selected from the group consisting of liver fibrosis, kidney fibrosis, and pulmonary fibrosis in a subject or organism may include contacting the subject or organism with a nucleic acid molecule under conditions suitable to modulate the expression of the TIMP1 and/or TIMP2 gene in the subject or organism.

Fibrotic Diseases

Fibrotic diseases are generally characterized by the excess deposition of a fibrous material within the extracellular matrix, which contributes to abnormal changes in tissue architecture and interferes with normal organ function.

All tissues damaged by trauma respond by the initiation of a wound-healing program. Fibrosis, a type of disorder characterized by excessive scarring, occurs when the normal self-limiting process of wound healing response is disturbed, and causes excessive production and deposition of collagen. As a result, normal organ tissue is replaced with scar tissue, which eventually leads to the functional failure of the organ.

Fibrosis may be initiated by diverse causes and in various organs. Liver cirrhosis, pulmonary fibrosis, sarcoidosis, keloids and kidney fibrosis are all chronic conditions associated with progressive fibrosis, thereby causing a continuous loss of normal tissue function.

Acute fibrosis (usually with a sudden and severe onset and of short duration) occurs as a common response to various forms of trauma including accidental injuries (particularly injuries to the spine and central nervous system), infections, surgery, ischemic illness (e.g. cardiac scarring following heart attack), burns, environmental pollutants, alcohol and other types of toxins, acute respiratory distress syndrome, radiation and chemotherapy treatments).

Fibrosis, a fibrosis related pathology or a pathology related to aberrant crosslinking of cellular proteins may all be treated by the siRNAs disclosed herein. Fibrotic diseases or diseases in which fibrosis is evident (fibrosis related pathology) include both acute and chronic forms of fibrosis of organs, including all etiological variants of the following: pulmonary fibrosis, including interstitial lung disease and fibrotic lung disease, liver fibrosis, cardiac fibrosis including myocardial fibrosis, kidney fibrosis including chronic renal failure, skin fibrosis including scleroderma, keloids and hypertrophic scars; myelofibrosis (bone marrow fibrosis); fibrosis in the brain associated with brain infarction; all types of ocular scarring including proliferative vitreoretinopathy (PVR) and scarring resulting from surgery to treat cataract or glaucoma; inflammatory bowel disease of variable etiology, macular degeneration, Grave's ophthalmopathy, drug induced ergotism, keloid scars, scleroderma, psoriasis, glioblastoma in Li-Fraumeni syndrome, sporadic glioblastoma, myleoid leukemia, acute myelogenous leukemia, myelodysplastic syndrome, myeloproferative syndrome, gynecological cancer, Kaposi's sarcoma, Hansen's disease, fibrosis associated with brain infarction and collagenous colitis.

In various embodiments, the compounds (nucleic acid molecules) as disclosed herein may be used to treat fibrotic diseases, for example as disclosed herein, as well as many other diseases and conditions apart from fibrotic diseases, for example such as disclosed herein. Other conditions to be treated include fibrotic diseases in other organs—kidney fibrosis for any reason (CKD including ESRD); lung fibrosis (including ILF); myelofibrosis, abnormal scarring (keloids) associated with all possible types of skin injury accidental and jatrogenic (operations); scleroderma; cardiofibrosis, failure of glaucoma filtering operation; intestinal adhesions.

Ocular Surgery and Fibrotic Complications

Contracture of scar tissue resulting from eye surgery may often occur. Glaucoma surgery to create new drainage channels often fails due to scarring and contraction of tissues and the generated drainage system may be blocked requiring additional surgical intervention. Current anti-scarring regimens (Mitomycin C or 5FU) are limited due to the complications involved (e.g. blindness) e.g. see Cordeiro M F, et al., Human anti-transforming growth factor-beta2 antibody: a new glaucoma anti-scarring agent Invest Ophthalmol Vis Sci. 1999 September; 40(10):2225-34. There may also be contraction of scar tissue formed after corneal trauma or corneal surgery, for example laser or surgical treatment for myopia or refractive error in which contraction of tissues may lead to inaccurate results. Scar tissue may be formed on/in the vitreous humor or the retina, for example, and may eventually causes blindness in some diabetics, and may be formed after detachment surgery, called proliferative vitreoretinopathy (PVR). PVR is the most common complication following retinal detachment and is associated with a retinal hole or break. PVR refers to the growth of cellular membranes within the vitreous cavity and on the front and back surfaces of the retina containing retinal pigment epithelial (RPE) cells. These membranes, which are essentially scar tissues, exert traction on the retina and may result in recurrences of retinal detachment, even after an initially successful retinal detachment procedure.

Scar tissue may be formed in the orbit or on eye and eyelid muscles after squint, orbital or eyelid surgery, or thyroid eye disease, and where scarring of the conjunctiva occurs as may happen after glaucoma surgery or in cicatricial disease, inflammatory disease, for example, pemphigoid, or infective disease, for example, trachoma. A further eye problem associated with the contraction of collagen-including tissues is the opacification and contracture of the lens capsule after cataract extraction. Important role for MMPs has been recognized in ocular diseases including wound healing, dry eye, sterile corneal ulceration, recurrent epithelial erosion, corneal neovascularization, pterygium, conjuctivochalasis, glaucoma, PVR, and ocular fibrosis.

Liver Fibrosis

Liver fibrosis (LF) is a generally irreversible consequence of hepatic damage of several etiologies. In the Western world, the main etiologic categories are: alcoholic liver disease (30-50%), viral hepatitis (30%), biliary disease (5-10%), primary hemochromatosis (5%), and drug-related and cryptogenic cirrhosis of, unknown etiology, (10-15%). Wilson's disease, α₁-antitrypsin deficiency and other rare diseases also have liver fibrosis as one of the symptoms. Liver cirrhosis, the end stage of liver fibrosis, frequently requires liver transplantation and is among the top ten causes of death in the Western world.

Kidney Fibrosis and Related Conditions. Chronic Renal Failure (CRF)

Chronic renal failure is a gradual and progressive loss of the ability of the kidneys to excrete wastes, concentrate urine, and conserve electrolytes. CRF is slowly progressive. It most often results from any disease that causes gradual loss of kidney function, and fibrosis is the main pathology that produces CRF.

Diabetic Nephropathy

Diabetic nephropathy, hallmarks of which are glomerulosclerosis and tubulointerstitial fibrosis, is the single most prevalent cause of end-stage renal disease in the modern world, and diabetic patients constitute the largest population on dialysis. Such therapy is costly and far from optimal. Transplantation offers a better outcome but suffers from a severe shortage of donors.

Chronic Kidney Disease

Chronic kidney disease (CKD) is a worldwide public health problem and is recognized as a common condition that is associated with an increased risk of cardiovascular disease and chronic renal failure (CRF).

The Kidney Disease Outcomes Quality Initiative (K/DOQI) of the National Kidney Foundation (NKF) defines chronic kidney disease as either kidney damage or a decreased kidney glomerular filtration rate (GFR) for three or more months. Other markers of CKD are also known and used for diagnosis. In general, the destruction of renal mass with irreversible sclerosis and loss of nephrons leads to a progressive decline in GFR. Recently, the K/DOQI published a classification of the stages of CKD, as follows:

-   -   Stage 1: Kidney damage with normal or increased GFR (>90         mL/min/1.73 m2)     -   Stage 2: Mild reduction in GFR (60-89 mL/min/1.73 m2)     -   Stage 3: Moderate reduction in GFR (30-59 mL/min/1.73 m2)     -   Stage 4: Severe reduction in GFR (15-29 mL/min/1.73 m2)     -   Stage 5: Kidney failure (GFR<15 mL/min/1.73 m2 or dialysis)

In stages 1 and 2 CKD, GFR alone does not confirm the diagnosis. Other markers of kidney damage, including abnormalities in the composition of blood or urine or abnormalities in imaging tests, may be relied upon.

Pathophysiology of CKD

Approximately 1 million nephrons are present in each kidney, each contributing to the total GFR. Irrespective of the etiology of renal injury, with progressive destruction of nephrons, the kidney is able to maintain GFR by hyperfiltration and compensatory hypertrophy of the remaining healthy nephrons. This nephron adaptability allows for continued normal clearance of plasma solutes so that substances such as urea and creatinine start to show significant increases in plasma levels only after total GFR has decreased to 50%, when the renal reserve has been exhausted. The plasma creatinine value will approximately double with a 50% reduction in GFR. Therefore, a doubling in plasma creatinine from a baseline value of 0.6 mg/dL to 1.2 mg/dL in a patient actually represents a loss of 50% of functioning nephron mass.

The residual nephron hyperfiltration and hypertrophy, although beneficial for the reasons noted, is thought to represent a major cause of progressive renal dysfunction. This is believed to occur because of increased glomerular capillary pressure, which damages the capillaries and leads initially to focal and segmental glomerulosclerosis and eventually to global glomerulosclerosis. This hypothesis has been based on studies of five-sixths nephrectomized rats, which develop lesions that are identical to those observed in humans with CKD.

The two most common causes of chronic kidney disease are diabetes and hypertension. Other factors include acute insults from nephrotoxins, including contrasting agents, or decreased perfusion; Proteinuria; Increased renal ammoniagenesis with interstitial injury; Hyperlipidemia; Hyperphosphatemia with calcium phosphate deposition; Decreased levels of nitrous oxide and smoking

In the United States, the incidence and prevalence of CKD is rising, with poor outcomes and high cost to the health system. Kidney disease is the ninth leading cause of death in the US. The high rate of mortality has led the US Surgeon General's mandate for America's citizenry, Healthy People 2010, to contain a chapter focused on CKD. The objectives of this chapter are to articulate goals and to provide strategies to reduce the incidence, morbidity, mortality, and health costs of chronic kidney disease in the United States.

The incidence rates of end-stage renal disease (ESRD) have also increased steadily internationally since 1989. The United States has the highest incident rate of ESRD, followed by Japan. Japan has the highest prevalence per million population, followed by the US.

The mortality rates associated with hemodialysis are striking and indicate that the life expectancy of patients entering into hemodialysis is markedly shortened. At every age, patients with ESRD on dialysis have significantly increased mortality when compared with nondialysis patients and individuals without kidney disease. At age 60 years, a healthy person can expect to live for more than 20 years, whereas the life expectancy of a 60-year-old patient starting hemodialysis is closer to 4 years (Aurora and Verelli, May 21, 2009. Chronic Renal Failure: Treatment & Medication. Emedicine. http://emedicine.medscape.com/article/238798-treatment).

Pulmonary Fibrosis

Interstitial pulmonary fibrosis (IPF) is scarring of the lung caused by a variety of inhaled agents including mineral particles, organic dusts, and oxidant gases, or by unknown reasons (idiopathic lung fibrosis). The disease afflicts millions of individuals worldwide, and there are no effective therapeutic approaches. A major reason for the lack of useful treatments is that few of the molecular mechanisms of disease have been defined sufficiently to design appropriate targets for therapy (Lasky J A., Brody A R. (2000), “Interstitial fibrosis and growth factors”, Environ Health Perspect.; 108 Suppl 4:751-62).

Cardiac Fibrosis

Heart failure is unique among the major cardiovascular disorders in that it alone is increasing in prevalence while there has been a striking decrease in other conditions. Some of this can be attributed to the aging of the populations of the United States and Europe. The ability to salvage patients with myocardial damage is also a major factor, as these patients may develop progression of left ventricular dysfunction due to deleterious remodelling of the heart.

The normal myocardium is composed of a variety of cells, cardiac myocytes and noncardiomyocytes, which include endothelial and vascular smooth muscle cells and fibroblasts.

Structural remodeling of the ventricular wall is a key determinant of clinical outcome in heart disease. Such remodeling involves the production and destruction of extracellular matrix proteins, cell proliferation and migration, and apoptotic and necrotic cell death. Cardiac fibroblasts are crucially involved in these processes, producing growth factors and cytokines that act as autocrine and paracrine factors, as well as extracellular matrix proteins and proteinases. Recent studies have shown that the interactions between cardiac fibroblasts and cardiomyocytes are essential for the progression of cardiac remodeling of which the net effect is deterioration in cardiac function and the onset of heart failure (Manabe I, et al., (2002), “Gene expression in fibroblasts and fibrosis: involvement in cardiac hypertrophy”, Circ Res. 13; 91(12):1103-13).

Burns and Scars

A particular problem which may arise, particularly in fibrotic disease, is contraction of tissues, for example contraction of scars. Contraction of tissues including extracellular matrix components, especially of collagen-including tissues, may occur in connection with many different pathological conditions and with surgical or cosmetic procedures. Contracture, for example, of scars, may cause physical problems, which may lead to the need for medical treatment, or it may cause problems of a purely cosmetic nature. Collagen is the major component of scar and other contracted tissue and as such is the most important structural component to consider. Nevertheless, scar and other contracted tissue also includes other structural components, especially other extracellular matrix components, for example, elastin, which may also contribute to contraction of the tissue.

Contraction of collagen-including tissue, which may also include other extracellular matrix components, frequently occurs in the healing of burns. The burns may be chemical, thermal or radiation burns and may be of the eye, the surface of the skin or the skin and the underlying tissues. It may also be the case that there are burns on internal tissues, for example, caused by radiation treatment. Contraction of burnt tissues is often a problem and may lead to physical and/or cosmetic problems, for example, loss of movement and/or disfigurement.

Skin grafts may be applied for a variety of reasons and may often undergo contraction after application. As with the healing of burnt tissues the contraction may lead to both physical and cosmetic problems. It is a particularly serious problem where many skin grafts are needed as, for example, in a serious burns case.

Contraction is also a problem in production of artificial skin. To make a true artificial skin it is necessary to have an epidermis made of epithelial cells (keratinocytes) and a dermis made of collagen populated with fibroblasts. It is important to have both types of cells because they signal and stimulate each other using growth factors. The collagen component of the artificial skin often contracts to less than one tenth of its original area when populated by fibroblasts.

Cicatricial contraction, contraction due to shrinkage of the fibrous tissue of a scar, is common. In some cases the scar may become a vicious cicatrix, a scar in which the contraction causes serious deformity. A patient's stomach may be effectively separated into two separate chambers in an hour-glass contracture by the contraction of scar tissue formed when a stomach ulcer heals. Obstruction of passages and ducts, cicatricial stenosis, may occur due to the contraction of scar tissue. Contraction of blood vessels may be due to primary obstruction or surgical trauma, for example, after surgery or angioplasty. Stenosis of other hollow visci, for examples, ureters, may also occur. Problems may occur where any form of scarring takes place, whether resulting from accidental wounds or from surgery. Conditions of the skin and tendons which involve contraction of collagen-including tissues include post-trauma conditions resulting from surgery or accidents, for example, hand or foot tendon injuries, post-graft conditions and pathological conditions, such as scleroderma, Dupuytren's contracture and epidermolysis bullosa. Scarring and contraction of tissues in the eye may occur in various conditions, for example, the sequelae of retinal detachment or diabetic eye disease (as mentioned above). Contraction of the sockets found in the skull for the eyeballs and associated structures, including extra-ocular muscles and eyelids, may occur if there is trauma or inflammatory damage. The tissues contract within the sockets causing a variety of problems including double vision and an unsightly appearance.

Other indications include Vocal cord fibrosis, Intestinal fibrosis and Fibrosis associated with brain infarction.

For further information on different types of fibrosis see: Molina V, et al., (2002), “Fibrotic diseases”, Harefuah, 141(11): 973-8, 1009; Yu L, et al., (2002), “Therapeutic strategies to halt renal fibrosis”, Curr Opin Pharmacol. 2(2):177-81; Keane W F and Lyle P A. (2003), “Recent advances in management of type 2 diabetes and nephropathy: lessons from the RENAAL study”, Am J Kidney Dis. 41(3 Suppl 2): S22-5; Bohle A, et al., (1989), “The pathogenesis of chronic renal failure”, Pathol Res Pract. 185(4):421-40; Kikkawa R, et al., (1997), “Mechanism of the progression of diabetic nephropathy to renal failure”, Kidney Int Suppl. 62:S39-40; Bataller R, and Brenner D A. (2001), “Hepatic stellate cells as a target for the treatment of liver fibrosis”, Semin Liver Dis. 21(3):437-51; Gross T J and Hunninghake G W, (2001) “Idiopathic pulmonary fibrosis”, N Engl J Med. 345(7):517-25; Frohlich E D. (2001) “Fibrosis and ischemia: the real risks in hypertensive heart disease”, Am J Hypertens; 14(6 Pt 2):194S-199S; Friedman S L. (2003), “Liver fibrosis—from bench to bedside”, J Hepatol. 38 Suppl 1:S38-53; Albanis E, et al., (2003), “Treatment of hepatic fibrosis: almost there”, Curr Gastroenterol Rep. 5(1):48-56; (Weber K T. (2000), “Fibrosis and hypertensive heart disease”, Curr Opin Cardiol. 15(4):264-72).

Delivery of Nucleic Acid Molecules and Pharmaceutical Formulations

Nucleic acid molecules may be adapted for use to prevent or treat fibrotic (e.g., liver, kidney, peritoneal, and pulmonary) diseases, traits, conditions and/or disorders, and/or any other trait, disease, disorder or condition that is related to or will respond to the levels of TIMP1 and TIMP2 in a cell or tissue. A nucleic acid molecule may include a delivery vehicle, including liposomes, for administration to a subject, carriers and diluents and their salts, and/or can be present in pharmaceutically acceptable formulations.

Nucleic acid molecules of the present invention may be delivered to the target tissue by direct application of the naked molecules prepared with a carrier or a diluent.

The terms “naked nucleic acid” or “naked dsRNA” or “naked siRNA” refers to nucleic acid molecules that are free from any delivery vehicle that acts to assist, promote or facilitate entry into the cell, including viral sequences, viral particles, liposome formulations, lipofectin or precipitating agents and the like. For example, dsRNA in PBS is “naked dsRNA”.

Nucleic acid molecules disclosed herein may be delivered or administered directly with a carrier or diluent but not any delivery vehicle that acts to assist, promote or facilitate entry to the cell, including viral vectors, viral particles, liposome formulations, lipofectin or precipitating agents and the like.

Nucleic acid molecules may be delivered or administered to a subject by direct application of the nucleic acid molecules with a carrier or diluent or any other delivery vehicle that acts to assist, promote or facilitate entry into a cell, including viral sequences, viral particular, liposome formulations, lipofectin or precipitating agents and the like. Polypeptides that facilitate introduction of nucleic acid into a desired subject such as those described in US. Application Publication No. 20070155658 (e.g., a melamine derivative such as 2,4,6-Triguanidino Traizine and 2,4,6-Tramidosarcocyl Melamine, a polyarginine polypeptide, and a polypeptide including alternating glutamine and asparagine residues).

Methods for the delivery of nucleic acid molecules are described in Akhtar et al., Trends Cell Bio., 2: 139 (1992); Delivery Strategies for Antisense Oligonucleotide Therapeutics, ed. Akhtar, (1995), Maurer et al., Mol. Membr. Biol., 16: 129-140 (1999); Hofland and Huang, Handb. Exp. Pharmacol., 137: 165-192 (1999); and Lee et al., ACS Symp. Ser., 752: 184-192 (2000); U.S. Pat. Nos. 6,395,713; 6,235,310; 5,225,182; 5,169,383; 5,167,616; 4,959217; 4,925,678; 4,487,603; and 4,486,194 and Sullivan et al., PCT WO 94/02595; PCT WO 00/03683 and PCT WO 02/08754; and U.S. Patent Application Publication No. 2003077829. These protocols can be utilized for the delivery of virtually any nucleic acid molecule. Nucleic acid molecules can be administered to cells by a variety of methods known to those of skill in the art, including, but not restricted to, encapsulation in liposomes, by iontophoresis, or by incorporation into other vehicles, such as biodegradable polymers, hydrogels, cyclodextrins (see e.g., Gonzalez et al., Bioconjugate Chem., 10: 1068-1074 (1999); Wang et al., International PCT publication Nos. WO 03/47518 and WO 03/46185), poly(lactic-co-glycolic)acid (PLGA) and PLCA microspheres (see for example U.S. Pat. No. 6,447,796 and U.S. Application Publication No. 2002130430), biodegradable nanocapsules, and bioadhesive microspheres, or by proteinaceous vectors (O'Hare and Normand, International PCT Publication No. WO 00/53722). Alternatively, the nucleic acid/vehicle combination is locally delivered by direct injection or by use of an infusion pump. Direct injection of the nucleic acid molecules as disclosed herein, whether subcutaneous, intramuscular, or intradermal, can take place using standard needle and syringe methodologies, or by needle-free technologies such as those described in Conry et al., Clin. Cancer Res., 5: 2330-2337 (1999) and Barry et al., International PCT Publication No. WO 99/31262. The molecules of as described herein can be used as pharmaceutical agents. Pharmaceutical agents may prevent, modulate the occurrence, or treat (alleviate a symptom to some extent, preferably all of the symptoms) of a disease state in a subject.

Nucleic acid molecules may be complexed with cationic lipids, packaged within liposomes, or otherwise delivered to target cells or tissues. The nucleic acid or nucleic acid complexes can be locally administered to relevant tissues ex vivo, or in vivo through direct dermal application, transdermal application, or injection, with or without their incorporation in biopolymers.

Delivery systems include surface-modified liposomes containing poly (ethylene glycol) lipids (PEG-modified, or long-circulating liposomes or stealth liposomes). These formulations offer a method for increasing the accumulation of drugs in target tissues. This class of drug carriers resists opsonization and elimination by the mononuclear phagocytic system (MPS or RES), thereby enabling longer blood circulation times and enhanced tissue exposure for the encapsulated drug (Lasic et al. Chem. Rev. 1995, 95, 2601-2627; Ishiwata et al., Chem. Pharm. Bull. 1995, 43, 1005-1011).

Nucleic acid molecules may be formulated or complexed with polyethylenimine (e.g., linear or branched PEI) and/or polyethylenimine derivatives, including for example polyethyleneimine-polyethyleneglycol-N-acetylgalactosamine (PEI-PEG-GAL) or polyethyleneimine-polyethyleneglycol-tri-N-acetylgalactosamine (PEI-PEG-triGAL) derivatives, grafted PEIs such as galactose PEI, cholesterol PEI, antibody derivatized PEI, and polyethylene glycol PEI (PEG-PEI) derivatives thereof (see for example Ogris et al., 2001, AAPA PharmSci, 3, 1-11; Furgeson et al., 2003, Bioconjugate Chem., 14, 840-847; Kunath et al., 2002, Pharmaceutical Research, 19, 810-817; Choi et al., 2001, Bull. Korean Chem. Soc., 22, 46-52; Bettinger et al., 1999, Bioconjugate Chem., 10, 558-561; Peterson et al., 2002, Bioconjugate Chem., 13, 845-854; Erbacher et al., 1999, Journal of Gene Medicine Preprint, 1, 1-18; Godbey et al., 1999., PNAS USA, 96, 5177-5181; Godbey et al., 1999, Journal of Controlled Release, 60, 149-160; Diebold et al., 1999, Journal of Biological Chemistry, 274, 19087-19094; Thomas and Klibanov, 2002, PNAS USA, 99, 14640-14645; Sagara, U.S. Pat. No. 6,586,524 and United States Patent Application Publication No. 20030077829.

Nucleic acid molecules may be complexed with membrane disruptive agents such as those described in U.S. Patent Application Publication No. 20010007666. The membrane disruptive agent or agents and the nucleic acid molecule may also be complexed with a cationic lipid or helper lipid molecule, such as those lipids described in U.S. Pat. No. 6,235,310.

The nucleic acid molecules may be administered via pulmonary delivery, such as by inhalation of an aerosol or spray dried formulation administered by an inhalation device or nebulizer, providing rapid local uptake of the nucleic acid molecules into relevant pulmonary tissues. Solid particulate compositions containing respirable dry particles of micronized nucleic acid compositions can be prepared by grinding dried or lyophilized nucleic acid compositions, and then passing the micronized composition through, for example, a 400 mesh screen to break up or separate out large agglomerates. A solid particulate composition comprising the nucleic acid compositions of contemplated herein can optionally contain a dispersant which serves to facilitate the formation of an aerosol as well as other therapeutic compounds. A suitable dispersant is lactose, which can be blended with the nucleic acid compound in any suitable ratio, such as a 1 to 1 ratio by weight.

Aerosols of liquid particles may include a nucleic acid molecules disclosed herein and can be produced by any suitable means, such as with a nebulizer (see e.g., U.S. Pat. No. 4,501,729). Nebulizers are commercially available devices which transform solutions or suspensions of an active ingredient into a therapeutic aerosol mist either by means of acceleration of a compressed gas, typically air or oxygen, through a narrow venturi orifice or by means of ultrasonic agitation. Suitable formulations for use in nebulizers include the active ingredient in a liquid carrier in an amount of up to 40% w/w preferably less than 20% w/w of the formulation. The carrier is typically water or a dilute aqueous alcoholic solution, preferably made isotonic with body fluids by the addition of, e.g., sodium chloride or other suitable salts. Optional additives include preservatives if the formulation is not prepared sterile, e.g., methyl hydroxybenzoate, anti-oxidants, flavorings, volatile oils, buffering agents and emulsifiers and other formulation surfactants. The aerosols of solid particles including the active composition and surfactant can likewise be produced with any solid particulate aerosol generator. Aerosol generators for administering solid particulate therapeutics to a subject produce particles which are respirable, as explained above, and generate a volume of aerosol containing a predetermined metered dose of a therapeutic composition at a rate suitable for human administration. One illustrative type of solid particulate aerosol generator is an insufflator. Suitable formulations for administration by insufflation include finely comminuted powders which can be delivered by means of an insufflator. In the insufflator, the powder, e.g., a metered dose thereof effective to carry out the treatments described herein, is contained in capsules or cartridges, typically made of gelatin or plastic, which are either pierced or opened in situ and the powder delivered by air drawn through the device upon inhalation or by means of a manually-operated pump. The powder employed in the insufflator consists either solely of the active ingredient or of a powder blend comprising the active ingredient, a suitable powder diluent, such as lactose, and an optional surfactant. The active ingredient typically includes from 0.1 to 100 w/w of the formulation. A second type of illustrative aerosol generator includes a metered dose inhaler. Metered dose inhalers are pressurized aerosol dispensers, typically containing a suspension or solution formulation of the active ingredient in a liquefied propellant. During use these devices discharge the formulation through a valve adapted to deliver a metered volume to produce a fine particle spray containing the active ingredient. Suitable propellants include certain chlorofluorocarbon compounds, e.g., dichlorodifluoromethane, trichlorofluoromethane, dichlorotetrafluoroethane and mixtures thereof. The formulation can additionally contain one or more co-solvents, for example, ethanol, emulsifiers and other formulation surfactants, such as oleic acid or sorbitan trioleate, anti-oxidants and suitable flavoring agents. Other methods for pulmonary delivery are described in, e.g., US Patent Application No. 20040037780, and U.S. Pat. Nos. 6,592,904; 6,582,728; 6,565,885. PCT Patent Publiction No. WO2008/132723 discloses aerosol delivery of oligonucleotides in general, and of siRNA in particular, to the respiratory system.

Nucleic acid molecules may be administered to the central nervous system (CNS) or peripheral nervous system (PNS). Experiments have demonstrated the efficient in vivo uptake of nucleic acids by neurons. See e.g., Sommer et al., 1998, Antisense Nuc. Acid Drug Dev., 8, 75; Epa et al., 2000, Antisense Nuc. Acid Drug Dev., 10, 469; Broaddus et al., 1998, J. Neurosurg., 88(4), 734; Karle et al., 1997, Eur. J. Pharmocol., 340(2/3), 153; Bannai et al., 1998, Brain Research, 784(1,2), 304; Rajakumar et al., 1997, Synapse, 26(3), 199; Wu-pong et al., 1999, BioPharm, 12(1), 32; Bannai et al., 1998, Brain Res. Protoc., 3(1), 83; and Simantov et al., 1996, Neuroscience, 74(1), 39. Nucleic acid molecules are therefore amenable to delivery to and uptake by cells in the CNS and/or PNS.

Delivery of nucleic acid molecules to the CNS is provided by a variety of different strategies. Traditional approaches to CNS delivery that can be used include, but are not limited to, intrathecal and intracerebroventricular administration, implantation of catheters and pumps, direct injection or perfusion at the site of injury or lesion, injection into the brain arterial system, or by chemical or osmotic opening of the blood-brain barrier. Other approaches can include the use of various transport and carrier systems, for example though the use of conjugates and biodegradable polymers. Furthermore, gene therapy approaches, e.g., as described in Kaplitt et al., U.S. Pat. No. 6,180,613 and Davidson, WO 04/013280, can be used to express nucleic acid molecules in the CNS.

Delivery systems may include, for example, aqueous and nonaqueous gels, creams, multiple emulsions, microemulsions, liposomes, ointments, aqueous and nonaqueous solutions, lotions, aerosols, hydrocarbon bases and powders, and can contain excipients such as solubilizers, permeation enhancers (e.g., fatty acids, fatty acid esters, fatty alcohols and amino acids), and hydrophilic polymers (e.g., polycarbophil and polyvinylpyrolidone). In one embodiment, the pharmaceutically acceptable carrier is a liposome or a transdermal enhancer. Examples of liposomes which can be used include the following: (1) CellFectin, 1:1.5 (M/M) liposome formulation of the cationic lipid N,NI,NII,NIII-tetramethyl-N,NI,NII,NIII-tetrapalmit-y-spermine and dioleoyl phosphatidylethanolamine (DOPE) (GIBCO BRL); (2) Cytofectin GSV, 2:1 (M/M) liposome formulation of a cationic lipid and DOPE (Glen Research); (3) DOTAP(N-[1-(2,3-dioleoyloxy)-N,N,N-tri-methyl-ammoniummethylsulfate) (Boehringer Manheim); and (4) Lipofectamine, 3:1 (M/M) liposome formulation of the polycationic lipid DOSPA, the neutral lipid DOPE (GIBCO BRL) and Di-Alkylated Amino Acid (DiLA2).

Delivery systems may include patches, tablets, suppositories, pessaries, gels and creams, and can contain excipients such as solubilizers and enhancers (e.g., propylene glycol, bile salts and amino acids), and other vehicles (e.g., polyethylene glycol, fatty acid esters and derivatives, and hydrophilic polymers such as hydroxypropylmethylcellulose and hyaluronic acid).

Nucleic acid molecules may be formulated or complexed with polyethylenimine (e.g., linear or branched PEI) and/or polyethylenimine derivatives, including for example grafted PEIs such as galactose PEI, cholesterol PEI, antibody derivatized PEI, and polyethylene glycol PEI (PEG-PEI) derivatives thereof (see for example Ogris et al., 2001, AAPA PharmSci, 3, 1-11; Furgeson et al., 2003, Bioconjugate Chem., 14, 840-847; Kunath et al., 2002, Pharmaceutical Research, 19, 810-817; Choi et al., 2001, Bull. Korean Chem. Soc., 22, 46-52; Bettinger et al., 1999, Bioconjugate Chem., 10, 558-561; Peterson et al., 2002, Bioconjugate Chem., 13, 845-854; Erbacher et al., 1999, Journal of Gene Medicine Preprint, 1, 1-18; Godbey et al., 1999., PNAS USA, 96, 5177-5181; Godbey et al., 1999, Journal of Controlled Release, 60, 149-160; Diebold et al., 1999, Journal of Biological Chemistry, 274, 19087-19094; Thomas and Klibanov, 2002, PNAS USA, 99, 14640-14645; and Sagara, U.S. Pat. No. 6,586,524.

Nucleic acid molecules may include a bioconjugate, for example a nucleic acid conjugate as described in Vargeese et al., U.S. Ser. No. 10/427,160; U.S. Pat. No. 6,528,631; U.S. Pat. No. 6,335,434; U.S. Pat. No. 6,235,886; U.S. Pat. No. 6,153,737; U.S. Pat. No. 5,214,136; U.S. Pat. No. 5,138,045.

Compositions, methods and kits disclosed herein may include an expression vector that includes a nucleic acid sequence encoding at least one nucleic acid molecule as provided herein in a manner that allows expression of the nucleic acid molecule. Methods of introducing nucleic acid molecules or one or more vectors capable of expressing the strands of dsRNA into the environment of the cell will depend on the type of cell and the make up of its environment. The nucleic acid molecule or the vector construct may be directly introduced into the cell (i.e., intracellularly); or introduced extracellularly into a cavity, interstitial space, into the circulation of an organism, introduced orally, or may be introduced by bathing an organism or a cell in a solution containing dsRNA. The cell is preferably a mammalian cell; more preferably a human cell. The nucleic acid molecule of the expression vector can include a sense region and an antisense region. The antisense region can include a sequence complementary to a RNA or DNA sequence encoding TIMP1 and TIMP2 and the sense region can include a sequence complementary to the antisense region. The nucleic acid molecule can include two distinct strands having complementary sense and antisense regions. The nucleic acid molecule can include a single strand having complementary sense and antisense regions.

Nucleic acid molecules that interact with target RNA molecules and down-regulate gene encoding target RNA molecules (e.g., target RNA molecules referred to by Genbank Accession numbers herein) may be expressed from transcription units inserted into DNA or RNA vectors. Recombinant vectors can be DNA plasmids or viral vectors. Nucleic acid molecule expressing viral vectors can be constructed based on, but not limited to, adeno-associated virus, retrovirus, adenovirus, or alphavirus. The recombinant vectors capable of expressing the nucleic acid molecules can be delivered as described herein, and persist in target cells. Alternatively, viral vectors can be used that provide for transient expression of nucleic acid molecules. Such vectors can be repeatedly administered as necessary. Once expressed, the nucleic acid molecules bind and down-regulate gene function or expression via RNA interference (RNAi). Delivery of nucleic acid molecule expressing vectors can be systemic, such as by intravenous or intramuscular administration, by administration to target cells ex-planted from a subject followed by reintroduction into the subject, or by any other means that would allow for introduction into the desired target cell.

Expression vectors may include a nucleic acid sequence encoding at least one nucleic acid molecule disclosed herein, in a manner which allows expression of the nucleic acid molecule. For example, the vector may contain sequence(s) encoding both strands of a nucleic acid molecule that include a duplex. The vector can also contain sequence(s) encoding a single nucleic acid molecule that is self-complementary and thus forms a nucleic acid molecule. Non-limiting examples of such expression vectors are described in Paul et al., 2002, Nature Biotechnology, 19, 505; Miyagishi and Taira, 2002, Nature Biotechnology, 19, 497; Lee et al., 2002, Nature Biotechnology, 19, 500; and Novina et al., 2002, Nature Medicine, advance online publication doi:10.1038/nm725. Expression vectors may also be included in a mammalian (e.g., human) cell.

An expression vector may include a nucleic acid sequence encoding two or more nucleic acid molecules, which can be the same or different. Expression vectors may include a sequence for a nucleic acid molecule complementary to a nucleic acid molecule referred to by a Genbank Accession number NM_(—)003254 (TIMP1) or NM_(—)003255 (TIMP2).

An expression vector may encode one or both strands of a nucleic acid duplex, or a single self-complementary strand that self hybridizes into a nucleic acid duplex. The nucleic acid sequences encoding nucleic acid molecules can be operably linked in a manner that allows expression of the nucleic acid molecule (see for example Paul et al., 2002, Nature Biotechnology, 19, 505; Miyagishi and Taira, 2002, Nature Biotechnology, 19, 497; Lee et al., 2002, Nature Biotechnology, 19, 500; and Novina et al., 2002, Nature Medicine, advance online publication doi:10.1038/nm725).

An expression vector may include one or more of the following: a) a transcription initiation region (e.g., eukaryotic pol I, II or III initiation region); b) a transcription termination region (e.g., eukaryotic pol I, II or III termination region); c) an intron and d) a nucleic acid sequence encoding at least one of the nucleic acid molecules, wherein said sequence is operably linked to the initiation region and the termination region in a manner that allows expression and/or delivery of the nucleic acid molecule. The vector can optionally include an open reading frame (ORF) for a protein operably linked on the 5′ side or the 3′-side of the sequence encoding the nucleic acid molecule; and/or an intron (intervening sequences).

Transcription of the nucleic acid molecule sequences can be driven from a promoter for eukaryotic RNA polymerase I (pol I), RNA polymerase II (pol II), or RNA polymerase III (pol III). Transcripts from pol II or pol III promoters are expressed at high levels in all cells; the levels of a given pol II promoter in a given cell type depends on the nature of the gene regulatory sequences (enhancers, silencers, etc.) present nearby. Prokaryotic RNA polymerase promoters are also used, providing that the prokaryotic RNA polymerase enzyme is expressed in the appropriate cells (Elroy-Stein and Moss, 1990, Proc. Natl. Acad. Sci. USA, 87, 6743-7; Gao and Huang 1993, Nucleic Acids Res., 21, 2867-72; Lieber et al., 1993, Methods Enzymol., 217, 47-66; Zhou et al., 1990, Mol. Cell. Biol., 10, 4529-37). Several investigators have demonstrated that nucleic acid molecules expressed from such promoters can function in mammalian cells (e.g. Kashani-Sabet et al., 1992, Antisense Res. Dev., 2, 3-15; Ojwang et al., 1992, Proc. Natl. Acad. Sci. USA, 89, 10802-6; Chen et al., 1992, Nucleic Acids Res., 20, 4581-9; Yu et al., 1993, Proc. Natl. Acad. Sci. USA, 90, 6340-4; L'Huillier et al., 1992, EMBO J., 11, 4411-8; Lisziewicz et al., 1993, Proc. Natl. Acad. Sci. U.S.A, 90, 8000-4; Thompson et al., 1995, Nucleic Acids Res., 23, 2259; Sullenger & Cech, 1993, Science, 262, 1566). More specifically, transcription units such as the ones derived from genes encoding U6 small nuclear (snRNA), transfer RNA (tRNA) and adenovirus VA RNA are useful in generating high concentrations of desired RNA molecules such as siNA in cells (Thompson et al., supra; Couture and Stinchcomb, 1996, supra; Noonberg et al., 1994, Nucleic Acid Res., 22, 2830; Noonberg et al., U.S. Pat. No. 5,624,803; Good et al., 1997, Gene Ther., 4, 45; Beigelman et al., International PCT Publication No. WO 96/18736. The above nucleic acid transcription units can be incorporated into a variety of vectors for introduction into mammalian cells, including but not restricted to, plasmid DNA vectors, viral DNA vectors (such as adenovirus or adeno-associated virus vectors), or viral RNA vectors (such as retroviral or alphavirus vectors) (see Couture and Stinchcomb, 1996 supra).

Nucleic acid molecule may be expressed within cells from eukaryotic promoters (e.g., Izant and Weintraub, 1985, Science, 229, 345; McGarry and Lindquist, 1986, Proc. Natl. Acad. Sci., USA 83, 399; Scanlon et al., 1991, Proc. Natl. Acad. Sci. USA, 88, 10591-5; Kashani-Sabet et al., 1992, Antisense Res. Dev., 2, 3-15; Dropulic et al., 1992, J. Virol., 66, 1432-41; Weerasinghe et al., 1991, J. Virol., 65, 5531-4; Ojwang et al., 1992, Proc. Natl. Acad. Sci. USA, 89, 10802-6; Chen et al., 1992, Nucleic Acids Res., 20, 4581-9; Sarver et al., 1990 Science, 247, 1222-1225; Thompson et al., 1995, Nucleic Acids Res., 23, 2259; Good et al., 1997, Gene Therapy, 4, 45. Those skilled in the art realize that any nucleic acid can be expressed in eukaryotic cells from the appropriate DNA/RNA vector. The activity of such nucleic acids can be augmented by their release from the primary transcript by a enzymatic nucleic acid (Draper et al., PCT WO 93/23569, and Sullivan et al., PCT WO 94/02595; Ohkawa et al., 1992, Nucleic Acids Symp. Ser., 27, 15-6; Taira et al., 1991, Nucleic Acids Res., 19, 5125-30; Ventura et al., 1993, Nucleic Acids Res., 21, 3249-55; Chowrira et al., 1994, J. Biol. Chem., 269, 25856.

A viral construct packaged into a viral particle would accomplish both efficient introduction of an expression construct into the cell and transcription of dsRNA construct encoded by the expression construct.

Methods for oral introduction include direct mixing of RNA with food of the organism, as well as engineered approaches in which a species that is used as food is engineered to express an RNA, then fed to the organism to be affected. Physical methods may be employed to introduce a nucleic acid molecule solution into the cell. Physical methods of introducing nucleic acids include injection of a solution containing the nucleic acid molecule, bombardment by particles covered by the nucleic acid molecule, soaking the cell or organism in a solution of the RNA, or electroporation of cell membranes in the presence of the nucleic acid molecule.

Other methods known in the art for introducing nucleic acids to cells may be used, such as lipid-mediated carrier transport, chemical mediated transport, such as calcium phosphate, and the like. Thus the nucleic acid molecules may be introduced along with components that perform one or more of the following activities: enhance RNA uptake by the cell, promote annealing of the duplex strands, stabilize the annealed strands, or other-wise increase inhibition of the target gene.

The nucleic acid molecules or the vector construct can be introduced into the cell using suitable formulations. One formulation comprises a lipid formulation such as in Lipofectamine™ 2000 (Invitrogen, CA, USA. Lipid formulations can also be administered to animals such as by intravenous, intramuscular, or intraperitoneal injection, or orally or by inhalation or other methods as are known in the art. When the formulation is suitable for administration into animals such as mammals and more specifically humans, the formulation is also pharmaceutically acceptable. Pharmaceutically acceptable formulations for administering oligonucleotides are known and can be used. In some instances, it may be preferable to formulate dsRNA in a buffer or saline solution and directly inject the formulated dsRNA into cells, as in studies with oocytes. The direct injection of dsRNA duplexes may also be done. For suitable methods of introducing dsRNA see U.S. published patent application No. 2004/0203145, 20070265220 which are incorporated herein by reference.

Polymeric nanocapsules or microcapsules facilitate transport and release of the encapsulated or bound dsRNA into the cell. They include polymeric and monomeric materials, especially including polybutylcyanoacrylate. A summary of materials and fabrication methods has been published (see Kreuter, 1991). The polymeric materials which are formed from monomeric and/or oligomeric precursors in the polymerization/nanoparticle generation step, are per se known from the prior art, as are the molecular weights and molecular weight distribution of the polymeric material which a person skilled in the field of manufacturing nanoparticles may suitably select in accordance with the usual skill.

Nucleic acid moles may be formulated as a microemulsion. A microemulsion is a system of water, oil and amphiphile which is a single optically isotropic and thermodynamically stable liquid solution. Typically microemulsions are prepared by first dispersing an oil in an aqueous surfactant solution and then adding a sufficient amount of a 4th component, generally an intermediate chain-length alcohol to form a transparent system.

Surfactants that may be used in the preparation of microemulsions include, but are not limited to, ionic surfactants, non-ionic surfactants, Brij 96, polyoxyethylene oleyl ethers, polyglycerol fatty acid esters, tetraglycerol monolaurate (ML310), tetraglycerol monooleate (MO310), hexaglycerol monooleate (PO310), hexaglycerol pentaoleate (PO500), decaglycerol monocaprate (MCA750), decaglycerol monooleate (MO750), decaglycerol sequioleate (SO750), decaglycerol decaoleate (DA0750), alone or in combination with cosurfactants. The cosurfactant, usually a short-chain alcohol such as ethanol, 1-propanol, and 1-butanol, serves to increase the interfacial fluidity by penetrating into the surfactant film and consequently creating a disordered film because of the void space generated among surfactant molecules.

Water Soluble Crosslinked Polymers

Delivery formulations can include water soluble degradable crosslinked polymers that include one or more degradable crosslinking lipid moiety, one or more PEI moiety, and/or one or more mPEG (methyl ether derivative of PEG (methoxypoly (ethylene glycol)).

Degradable lipid moieties preferably include compounds having the following structural motif:

In the above formula, ester linkages are biodegradable groups, R represents a relatively hydrophobic “lipo” group, and the structural motif shown occurs m times where m is in the range of about 1 to about 30. For example, in certain embodiments R is selected from the group consisting of C₂-C₅₀ alkyl, C₂-C₅₀ heteroalkyl, C₂-C₅₀ alkenyl, C₂-C₅₀ heteroalkenyl, C₅-C₅₀ aryl; C₂-C₅₀ heteroaryl; C₂-C₅₀ alkynyl, C₂-C₅₀ heteroalkynyl, C₂-C₅₀ carboxyalkenyl, and C₂-C₅₀ carboxyheteroalkenyl. In preferred embodiments, R is a saturated or unsaturated alkyl having 4 to 30 carbons, more preferably 8 to 24 carbons or a sterol, preferably a cholesteryl moiety. In preferred embodiments, R is oleic, lauric, myristic, palmitic margaric, stearic, arachidic, behenic, or lignoceric. In a most preferred embodiment, R is oleic.

The N in formula (B) may have an electron pair or a bond to a hydrogen atom. When N has an electron pair, the recurring unit may be cationic at low pH.

The degradable crosslinking lipid moiety may be reacted with a polyethyleneimine (PEI) as shown in Scheme A below:

In formula (A), R has the same meanings as described above. The PEI may contain recurring units of formula (B) in which x is an integer in the range of about 1 to about 100 and y is an integer in the range of about 1 to about 100.

The reaction illustrated in Scheme A may be carried out by intermixing the PEI and the diacrylate (I) in a mutual solvent such as ethanol, methanol or dichloromethane with stirring, preferably at room temperature for several hours, then evaporating the solvent to recover the resulting polymer. While not wishing to be bound to any particular theory, it is believed that the reaction between the PEI and diacrylate (I) involves a Michael reaction between one or more amines of the PEI with double bond(s) of the diacrylate (see J. March, Advanced Organic Chemistry 3rd Ed., pp. 711-712 (1985)). The diacrylate shown in Scheme A may be prepared in the manner as described in U.S. application Ser. No. 11/216,986 (US Publication No. 2006/0258751).

The molecular weight of the PEI is preferably in the range of about 200 to 25,000 Daltons more preferably 400 to 5,000 Daltons, yet more preferably 600 to 2000 Daltons. PEI may be either branched or linear.

The molar ratio of PEI to diacrylate is preferably in the range of about 1:2 to about 1:20. The weight average molecular weight of the cationic lipopolymer may be in the range of about 500 Daltons to about 1,000,000 Daltons preferably in the range of about 2,000 Daltons to about 200,000 Daltons. Molecular weights may be determined by size exclusion chromatography using PEG standards or by agarose gel electrophoresis.

The cationic lipopolymer is preferably degradable, more preferably biodegradable, e.g., degradable by a mechanism selected from the group consisting of hydrolysis, enzyme cleavage, reduction, photo-cleavage, and sonication. While not wishing to be bound to any particular theory, but it is believed that degradation of the cationic lipopolymer of formula (II) within the cell proceeds by enzymatic cleavage and/or hydrolysis of the ester linkages.

Synthesis may be carried out by reacting the degradable lipid moiety with the PEI moiety as described above. Then the mPEG (methyl ether derivative of PEG (methoxypoly (ethylene glycol)), is added to form the degradable crosslinked polymer. In preferred embodiments, the reaction is carried out at room temperature. The reaction products may be isolated by any means known in the art including chromatographic techniques. In a preferred embodiment, the reaction product may be removed by precipitation followed by centrifugation.

Dosages

The useful dosage to be administered and the particular mode of administration will vary depending upon such factors as the cell type, or for in vivo use, the age, weight and the particular animal and region thereof to be treated, the particular nucleic acid and delivery method used, the therapeutic or diagnostic use contemplated, and the form of the formulation, for example, suspension, emulsion, micelle or liposome, as will be readily apparent to those skilled in the art. Typically, dosage is administered at lower levels and increased until the desired effect is achieved.

When lipids are used to deliver the nucleic acid, the amount of lipid compound that is administered can vary and generally depends upon the amount of nucleic acid being administered. For example, the weight ratio of lipid compound to nucleic acid is preferably from about 1:1 to about 30:1, with a weight ratio of about 5:1 to about 10:1 being more preferred.

A suitable dosage unit of nucleic acid molecules may be in the range of 0.001 to 0.25 milligrams per kilogram body weight of the recipient per day, or in the range of 0.01 to 20 micrograms per kilogram body weight per day, or in the range of 0.01 to 10 micrograms per kilogram body weight per day, or in the range of 0.10 to 5 micrograms per kilogram body weight per day, or in the range of 0.1 to 2.5 micrograms per kilogram body weight per day.

Suitable amounts of nucleic acid molecules may be introduced and these amounts can be empirically determined using standard methods. Effective concentrations of individual nucleic acid molecule species in the environment of a cell may be about 1 femtomolar, about 50 femtomolar, 100 femtomolar, 1 picomolar, 1.5 picomolar, 2.5 picomolar, 5 picomolar, 10 picomolar, 25 picomolar, 50 picomolar, 100 picomolar, 500 picomolar, 1 nanomolar, 2.5 nanomolar, 5 nanomolar, 10 nanomolar, 25 nanomolar, 50 nanomolar, 100 nanomolar, 500 nanomolar, 1 micromolar, 2.5 micromolar, 5 micromolar, 10 micromolar, 100 micromolar or more.

Dosage may be from 0.01 μg to 1 g per kg of body weight (e.g., 0.1 μg, 0.25 μg, 0.5 μg, 0.75 μg, 1 μg, 2.5 μg, 5 μg, 10 μg, 25 μg, 50 μg, 100 μg, 250 μg, 500 μg, 1 mg, 2.5 mg, 5 mg, 10 mg, 25 mg, 50 mg, 100 mg, 250 mg, or 500 mg per kg).

Dosage levels of the order of from about 0.1 mg to about 140 mg per kilogram of body weight per day are useful in the treatment of the above-indicated conditions (about 0.5 mg to about 7 g per subject per day). The amount of active ingredient that can be combined with the carrier materials to produce a single dosage form varies depending upon the host treated and the particular mode of administration. Dosage unit forms generally contain between from about 1 mg to about 500 mg of an active ingredient.

It is understood that the specific dose level for any particular subject depends upon a variety of factors including the activity of the specific compound employed, the age, body weight, general health, sex, diet, time of administration, route of administration, and rate of excretion, drug combination and the severity of the particular disease undergoing therapy.

Pharmaceutical compositions that include the nucleic acid molecule disclosed herein may be administered once daily, qid, tid, bid, QD, or at any interval and for any duration that is medically appropriate. However, the therapeutic agent may also be dosed in dosage units containing two, three, four, five, six or more sub-doses administered at appropriate intervals throughout the day. In that case, the nucleic acid molecules contained in each sub-dose may be correspondingly smaller in order to achieve the total daily dosage unit. The dosage unit can also be compounded for a single dose over several days, e.g., using a conventional sustained release formulation which provides sustained and consistent release of the dsRNA over a several day period. Sustained release formulations are well known in the art. The dosage unit may contain a corresponding multiple of the daily dose. The composition can be compounded in such a way that the sum of the multiple units of a nucleic acid together contain a sufficient dose.

Pharmaceutical Compositions, Kits, and Containers

Also provided are compositions, kits, containers and formulations that include a nucleic acid molecule (e.g., an siNA molecule) as provided herein for reducing expression of TIMP1 and TIMP2 for administering or distributing the nucleic acid molecule to a patient. A kit may include at least one container and at least one label. Suitable containers include, for example, bottles, vials, syringes, and test tubes. The containers can be formed from a variety of materials such as glass, metal or plastic. The container can hold amino acid sequence(s), small molecule(s), nucleic acid sequence(s), cell population(s) and/or antibody(s). In one embodiment, the container holds a polynucleotide for use in examining the mRNA expression profile of a cell, together with reagents used for this purpose. In another embodiment a container includes an antibody, binding fragment thereof or specific binding protein for use in evaluating TIMP1 and TIMP2 protein expression cells and tissues, or for relevant laboratory, prognostic, diagnostic, prophylactic and therapeutic purposes; indications and/or directions for such uses can be included on or with such container, as can reagents and other compositions or tools used for these purposes. Kits may further include associated indications and/or directions; reagents and other compositions or tools used for such purpose can also be included.

The container can alternatively hold a composition that is effective for treating, diagnosis, prognosing or prophylaxing a condition and can have a sterile access port (for example the container can be an intravenous solution bag or a vial having a stopper pierceable by a hypodermic injection needle). The active agents in the composition can be a nucleic acid molecule capable of specifically binding TIMP1 and TIMP2 and/or modulating the function of TIMP1 and TIMP2.

A kit may further include a second container that includes a pharmaceutically-acceptable buffer, such as phosphate-buffered saline, Ringer's solution and/or dextrose solution. It can further include other materials desirable from a commercial and user standpoint, including other buffers, diluents, filters, stirrers, needles, syringes, and/or package inserts with indications and/or instructions for use.

The units dosage ampoules or multidose containers, in which the nucleic acid molecules are packaged prior to use, may include an hermetically sealed container enclosing an amount of polynucleotide or solution containing a polynucleotide suitable for a pharmaceutically effective dose thereof, or multiples of an effective dose. The polynucleotide is packaged as a sterile formulation, and the hermetically sealed container is designed to preserve sterility of the formulation until use.

The container in which the polynucleotide including a sequence encoding a cellular immune response element or fragment thereof may include a package that is labeled, and the label may bear a notice in the form prescribed by a governmental agency, for example the Food and Drug Administration, which notice is reflective of approval by the agency under Federal law, of the manufacture, use, or sale of the polynucleotide material therein for human administration.

Federal law requires that the use of pharmaceutical compositions in the therapy of humans be approved by an agency of the Federal government. In the United States, enforcement is the responsibility of the Food and Drug Administration, which issues appropriate regulations for securing such approval, detailed in 21 U.S.C. §301-392. Regulation for biologic material, including products made from the tissues of animals is provided under 42 U.S.C. §262. Similar approval is required by most foreign countries. Regulations vary from country to country, but individual procedures are well known to those in the art and the compositions and methods provided herein preferably comply accordingly.

The dosage to be administered depends to a large extent on the condition and size of the subject being treated as well as the frequency of treatment and the route of administration. Regimens for continuing therapy, including dose and frequency may be guided by the initial response and clinical judgment. The parenteral route of injection into the interstitial space of tissues is preferred, although other parenteral routes, such as inhalation of an aerosol formulation, may be required in specific administration, as for example to the mucous membranes of the nose, throat, bronchial tissues or lungs.

As such, provided herein is a pharmaceutical product which may include a polynucleotide including a sequence encoding a cellular immune response element or fragment thereof in solution in a pharmaceutically acceptable injectable carrier and suitable for introduction interstitially into a tissue to cause cells of the tissue to express a cellular immune response element or fragment thereof, a container enclosing the solution, and a notice associated with the container in form prescribed by a governmental agency regulating the manufacture, use, or sale of pharmaceuticals, which notice is reflective of approval by the agency of manufacture, use, or sale of the solution of polynucleotide for human administration.

Indications

The nucleic acid molecules disclosed herein can be used to treat diseases, conditions or disorders associated with TIMP1 and TIMP2, such as liver fibrosis, cirrhosis, pulmonary fibrosis, kidney fibrosis, peritoneal fibrosis, chronic hepatic damage, and fibrillogenesis and any other disease or conditions that are related to or will respond to the levels of TIMP1 and TIMP2 in a cell or tissue. As such, compositions, kits and methods disclosed herein may include packaging a nucleic acid molecule disclosed herein that includes a label or package insert. The label may include indications for use of the nucleic acid molecules such as use for treatment or prevention of liver fibrosis, peritoneal fibrosis, kidney fibrosis and pulmonary fibrosis, and any other disease or conditions that are related to or will respond to the levels of TIMP1 and TIMP2 in a cell or tissue. A label may include an indication for use in reducing expression of TIMP1 and TIMP2. A “package insert” is used to refer to instructions customarily included in commercial packages of therapeutic products, that contain information about the indications, usage, dosage, administration, contraindications, other therapeutic products to be combined with the packaged product, and/or warnings concerning the use of such therapeutic products, etc.

Those skilled in the art will recognize that two or more siTIMP1 and or siTIMP2 may be combined or that other anti-fibrosis treatments, drugs and therapies known in the art can be readily combined with the nucleic acid molecules herein (e.g. siNA molecules) and are hence contemplated herein.

The methods and compositions provided herein will now be described in greater detail by reference to the following non-limiting examples.

EXAMPLES Example 1 siRNA Sequences

siRNA sequences for TIMP-1, TIMP-2, positive control and negative control are listed in Tabls C and D. 100 μM siRNA stock solution was prepared by dissolving in nucrease free water (Ambion). In the “Sequence” columns in Tables C and D, lower case letters represent unmodified ribonucleotides, “T” represents deoxyribothymidine.

TABLE C SEQ ID Target Name Orientation Sequence NO: Species nucleotides TIMP1 TIMP1-A S (5′->3′) ccaccuuauaccagcguuaTT 5 Human, [355-373] AS (3′->5′) TTgguggaauauggucgcaau 6 mouse, rat, ORF rhesus TIMP1 TIMP1-B S (5′->3′) cacuguuggcugugaggaaTT 7 Human [620-638] AS (3′->5) TTgugacaaccgacacuccuu 8 rhesus ORF TIMP1 TIMP1-C S (5′->3′) gcacaguguuucccuguuuTT 9 Human mouse [640-658] AS (3′->5′) TTcgugucacaaagggacaaa 10 rat rhesus ORF

TABLE D SEQ ID Target Name Orientation Sequence NO Species nucleotides TIMP2 TIMP2-A S (5′->3′) ugcagauguagugaucaggTT 11 human [421-439] AS (3′->5′) TTacgucuacaucacuagucc 12 ORF TIMP2 TIMP2-B S (5′->3′) gaggauccaguaugagaucTT 13 human [502-520] AS (3′->5′) TTcuccuaggucauacucuag 14 rhesus ORF rabbit TIMP2 TIMP2-C S (5′->3′) gcagauaaagauguucaaaTT 15 human [523-541] AS (3′->5′) TTcgucuauuucuacaaguuu 16 mouse rat ORF cow dog pig TIMP2 TIMP2-D S (5′->3′) ggaauaucucauugcaggaTT 17 human [625-643] AS (3′->5′) TTccuuauagaguaacguccu 18 ORF TIMP2 TIMP2-E S (5′->3′) uaucucauugcaggaaaggTT 19 human [629-647] AS (3′->5′) TTauagaguaacguccuuucc 20 ORF

Example 2 siRNA Delivery

HT-1080 cell (Japanese Collection of Research Bioresources) was maintained incubated in DMEM (Sigma, Cat#D6546) with 10% fetal bovine serum (FBS; Hyclone, Cat.#SH30070.03) and 1% volume/volume L-Glutamine-penicillin-streptomycin solution (Sigma, Cat.#G1146) and 1% volume/volume L-Glutamine solution (Sigma, Cat.#G7513). Before delivering siRNA, cells were seeded in 6-well plate (Nunc. #140675) at the density of 5×10³ cells per well and incubated at 37° C. with 7.5% CO₂ for 2 days. siRNAs for TIMP1 were transfected to the cells with VA-coupled liposome (VA-liposome) as described by Sato et al. (Sato Y. et al. Nature Biotechnology 2008. Vol. 26, p431) and siRNAs for TIMP2 were delivered with VA-conjugated cationic polymer (VA-polymer), synthesized in-house at the ratio of 5:1 (VA-polymer:siRNA, weight per weight). The final concentration of siRNA was 50 nM. 2-hours after siRNA delivery, cell culture medium was replaced to fresh DMEM with 10% FBS and incubated for 2 overnight at 37° C. with 7.5% CO₂.

Example 3 Gene Knocking Down Assessment of siRNA by RT-PCR

After transfection as described in Example 2, total RNA was isolated with QIAshreader QIAGEN, 79654) and RNeasy Mini Kit (QIAGEN, 74104) by following manufacturer's protocol. 1 μg of the isolated total RNA was used for cDNA preparation with Hicapacity RNA-to-cDNA Master Mix (Applied Biosystems, 4390779) as indicated by manufacturer's protocol. Then, 0.05 μg of cDNA was employed for polymerase chain reaction (PCR) with ExTaq (TaKaRa, RR001B) polymerase by following supplied manual. PCR primers for detection of each gene are listed in excel file. PCR condition was as follows: 94° C. 4 min, then 4° C. 30 sec, 63° C. 30 sec, 72° C. 1 min for 23 cycles, 72° C. 5 min before termination. 15 μl of PCR products for TIMP-1 or TIMP-2 gene and 5 μl for GAPDH gene were identified by agarose gel electrophoresis.

FIG. 2 indicates knock down efficacy of siRNAs for TIMP1 as measured by qPCR. The amount of PCR product from cells transfected with TIMP-1 siRNA, e.g. TIMP1-A (SEQ ID NOS:5 and 6), TIMP1-B (SEQ ID NOS:7 and 8) or TIMP1-C (SEQ ID NOS:9 and 10), was less than that from untreated cells, therefore, those siRNA for TIMP1 gene are capable to knock down the target gene.

FIG. 3 represents knock down efficacy of siRNAs for TIMP2 as measured by qPCR: TIMP2-A (SEQ ID NOS:11 and 12), TIMP2-B (SEQ ID NOS:13 and 14), TIMP2-C (SEQ ID NOS:15 and 16), TIMP2-D (SEQ ID NOS:17 and 18) and TIMP2-E (SEQ ID NOS:19 and 20). TIMP2 siRNA showed target gene knock down and level of gene silencing was dependent on the sequence.

Example 4 Treatment of Liver Cirrhosis in Rats with siTIMP1 and siTIMP2

Liver cirrhosis animal model: Liver cirrhosis was induced in rats using the method described by Sato et al., (Sato Y. et al. Nat Biotech 2008. 26:431). Briefly, liver cirrhosis was induced in 4 week-old male SD rats by injecting them dimethylnitrosoamine (DMN) (Wako Chemicals, Japan) as follows: 0.5% DMN in phosphate-buffered saline (PBS) was administered to rats intraperitoneally at a dose of 2 ml/kg per body weight for 3 consecutive days per week. Specifically, DMN solution was injected on days 0 (start of the experiment), 2, 4, 7, 9, 11, 14, 16, 18, 21, 23, 25, 28, 30, 32, 34 and 36.

siRNA Sequence for TIMP1 (“siTIMP1-A”)

S (5′->3′) ccaccuuauaccagcguuaTT (SEQ ID NO: 5) AS (3′->5′) TTgguggaauauggucgcaau (SEQ ID NO: 6)

siRNA Sequence for TIMP2 (“siTIMP2-C”)

S (5′->3′) gcagauaaagauguucaaaTT (SEQ ID NO: 15) AS (3′->5′) TTcgucuauuucuacaaguuu (SEQ ID NO: 16)

A 10 μg/μl siRNA stock solution was prepared by dissolving siRNA duplexes (siTIMP1 or siTIMP2) in nuclease free water (Ambion). For treatment of rats, siRNA was formulated with vitamin A-coupled liposome as described by Sato et al (Sato Y. et al. Nature Biotech 2008. Vol. 26, p431). The vitamin A (VA)-liposome-siRNA formulation consisted of 0.33 μmol/ml of VA, 0.33 μmol/ml of liposome (Coatsome EL-01-D, NOF Corporation) and 0.5 μg/μl of siRNA in 5% glucose solution.

Injection Solution for siRNA Delivered at a Concentration of 0.75 mg/Kg

The liposomes were prepared at a concentration of 1 mM by addition of nuclease-free water, and left for 15 min at room temperature before use. To prepare VA-coupled liposomes, 100 nmol of vitamin A (dissolved in DMSO) was mixed with the liposomes (100 nmol) by vortex for 15 seconds at R.T.

The siRNA duplexes (150 μg) were prepared at a concentration of 10 μg/μl by addition of nuclease-free water. A 5% glucose (175 μl) solution was added to the liposomal suspension. (Total volume of 300 μl). The VA-liposome-siRNA solutions were injected to each rat to a final concentration of 0.75 ml/Kg body weight.

Injection solution for siRNA delivered at a concentration of 1.5 mg/Kg

The liposomes were prepared at a concentration of 1 mM by addition of nuclease-free water, and left to stand for 15 min before use. To prepare VA-coupled liposome, 200 nmol of vitamin A (dissolved in DMSO) was mixed with the liposome (200 nmol) by vortex for 15 seconds at R.T.

The siRNA duplexes (300 μg) were prepared at a concentration of 10 μg/μl by addition of nuclease-free water. A 5% glucose (50 μl) solution was added to the liposomal suspension. (Total volume 300 μl). The VA-liposome-siRNA solutions were injected to each rat to a final concentration of 1.5 ml/Kg body weight.

siRNA Treatment

The siRNA treatment was carried out from day 28 for 5 times by intravenous injection. In detail, rats were treated with siRNA on days 28, 30, 32, 34 and 36 post DMN treatment. Rats were sacrificed on day 38 or 39. Two different siRNA species (siTIMP1-A and siTIMP2-C) and 2 different doses (0.75 mg siRNA per kg body weight, 1.5 mg siRNA per kg body weight) were tested. Details of tested groups and number of animals in each group are as follows:

-   -   1) Control animals: Liver cirrhosis was induced by DMN         injection, and a 5% glucose was administered (n=9)     -   2) VA-Lip-siTIMP1-A 0.75 mg/Kg (n=9)     -   3) VA-Lip-siTIMP1-A 1.5 mg/Kg (n=9)     -   4) VA-Lip-siTIMP2-C 0.75 mg/Kg (n=9)     -   5) VA-Lip-siTIMP2-C1.5 mg/Kg (n=9)     -   6) Sham (PBS was injected instead of DMN. 5% Glucose was         administered instead of siRNA) (n=5)     -   7) Untreated control animals (Intact) (n=5)

Evaluation of Therapeutic Efficacy

On day 38, 2 out of 10 animals in “siTIMP2-C” group died and were not analyzed further. However, other animals were survived before the sacrifice. After rats were sacrificed, liver tissues were fixed in 10% formalin. The left lobe of the liver was embedded in paraffin for tissue slide preparation. Tissue slides were stained with Sirius red as well as hematoxylin and eosin (HE). Sirius red staining was employed to visualize collagen-deposited area and determine the level of cirrhosis. HE staining was used for nuclei and cytoplasm as counter-staining Each slide was observed under microscope (BZ-9000, Keyence Corp. Japan) and the percentage of Sirius red-stained area per slide was determined by image analysis software attached to the microscope. At least 4 slides per each liver were prepared for image analysis, and whole area of each slide (slice of liver) was captured by camera and analyzed. Statistic analysis was carried out by t-test analysis. Results are shown in FIG. 4. Liver sections were photographed at ×32 magnification. The fibrotic areas were calculated as the mean of 4 liver sections. The bar graph summarizes the digital quantification of staining for each group. Statistical values are as follows: *=P<0.05, **=P<0.01, ***=P<0.001

FIG. 4 represents the fibrotic area in liver sections. The area of fibrosis in the “diseased rat” (group 1) was higher than “sham” (group 6) or “untreated” (group 7) groups. Therefore, DMN treatment induced collagen deposition in liver, typical of liver fibrosis. The area of fibrosis was significantly reduced by the treatment of siRNA targeting TIMP1 gene (groups 2 and 3), compared with “diseased rat” group, indicating that siRNA to TIMP1 has therapeutic efficacy in treating fibrotic diseases and disorders.

Example 5 Selecting TIMP1 and TIMP2 Nucleic Acid Molecule Sequences

Nucleic acid molecules (e.g., siNA≦25 nucleotides) against TIMP1 and TIMP2 were designed using a proprietary database. Candidate sequences are validated by in vitro knock down assays. Details of the nucleic acids set forth in the Tables are

The Tables (A1, A2, A5, A6, B1, B2, B5, B6) include

-   -   a. 19-mer and 18-mer siRNAs (sense and corresponding antisense         sequences to form duplex siRNA) predicted to be active by a         proprietary database and excludes known 19-mer siRNAs;     -   b. siRNAs which target human and at least two additional species         (cross species) selected from dog, rat, mouse and rabbit and are         predicted to be active;         -   i. inclusion of cross-species siRNA compounds are siRNA with             full match to the indicated target (“Sense”) and         -   ii. inclusion of siRNAs with mismatches relative to the             target, at positions 1, 19 (5′>3′) or both.

The Tables of “preferred” siRNA (A3, A7, B3, B7) include sense and corresponding antisense sequences that were selected as follows:

-   -   i. Selection for cross species to human (H) and rat (Rt) and         inclusion of sequences with 1 MM (single mismatch (MM)) to rat         target in positions other than 1/19 (5′>3′)     -   ii. Addition of predicted active siRNA compounds that don't         target rat but target at least two other species selected from         dog, mouse and rabbit.     -   iii. Addition of best siRNA targeting human or human+rhesus     -   iv. Exclusion of siRNAs that target miRNA seed sequence     -   v. Exclusion of siRNAs with high G/C content     -   vi. Exclusion of siRNAs targeting multiple SNPs

The Tables labeled as “lowest predicted OT effect” (Tables A4, A8, B4 and B8) relate to siRNA from the “preferred” Tables having best off-target (OT) features including

-   -   c. Column labeled “Crosses”—Indicates species specificity as         follows:         -   i. H/Rt=siRNA targeting at least human and rat         -   ii. H/Rt (Rt cross—with 1MM)=siRNA targeting at least human             and rat. Target match to rat is partial and there is one             mismatch at a position other than 1 or 19         -   iii. Other (w/o Rt)—siRNA targets human and other species             but not rat         -   iv. H+/−Rh=siRNA targeting only human or human and Rhesus             but no other species

Column labeled “# in HTS list”—Indicates the siRNA number in the preceding “Preferred” Table (A3, A7, B3, B7).

-   -   2. Selection is done in the following manner:         -   i. Mismatches (MM) are identified in positions 2-18 of the             guide strand. MM in positions 1 and 19 are NOT considered as             mismatches.         -   ii. Exclusion of siRNAs having complete match (0 MM) to             other genes         -   iii. Exclusion of siRNAs having 1 MM in position 17 or 18             (of AS strand) to other genes         -   iv. Preference (ranking of predicted OT activity):             -   1—has 3MM within positions 2-16 of AS (5′>3′).             -   2—has 2MM to 1-4 gene targets within positions 2-16             -   3—has 2MM to 5-9 gene targets within (positions 2-16)             -   4—targets 10-20 genes with 2MM (positions 2-16)

Sequences of sense and antisense oligonucleotides useful in the preparation of siRNA molecules are disclosed in Tables A1, A2, A3, A4, A5, A6, A7, A8, B1, B2, B3, B4, B5, B6, B7, B8 (Tables A1-B8) infra. Best OT refers to least number of matches to off-target genes.

The following abbreviations are used in the Tables A1-B8 (Tables A1, A2, A3, A4, A5, A6, A7 A8, B1, B2, B3, B4, B5, B6, B7 and B8) herein: “other spec or Sp.” refers to cross species identity with other animals: D or Dg-dog, Rt-rat, Rb-rabbit, Rh-rhesus monkey, Pg-Pig, M or Ms-Mouse, Ck-Chicken, Cw-Cow; ORF: open reading frame. 19-mers, and 18+1-mers refer to oligomers of 19 and 18+1 (U at position 1 of Antisense, A at position 19 of sense strand or A at position 1 of Antisense, U at position 19 of sense strand) ribonucleic acids in length, respectively.

TABLE A1 19-mer siTIMP1 SEQ SEQ ID ID human-73858576 No. Sense (5′>3′) NO. Antisense (5′>3′) NO. Other Sp ORF: 193-816 1 GUUUCUCAUUGCUGGAAAA 21 UUUUCCAGCAAUGAGAAAC 129 Rh [506-524] ORF 2 CACAGUGUUUCCCUGUUUA 22 UAAACAGGGAAACACUGUG 130 Rh, M [641-659] ORF 3 CUUUCUUCCGGACAAUGAA 23 UUCAUUGUCCGGAAGAAAG 131 [874-892] 3′UTR 4 GCUGAAGCCUGCACAGUGU 24 ACACUGUGCAGGCUUCAGC 132 [834-852] 3′UTR 5 GGAGUUUCUCAUUGCUGGA 25 UCCAGCAAUGAGAAACUCC 133 Rh [503-521] ORF 6 GCACAGUGUUUCCCUGUUU 26 AAACAGGGAAACACUGUGC 134 Rh, Rt, M [640-658] ORF 7 CAUCUUUCUUCCGGACAAU 27 AUUGUCCGGAAGAAAGAUG 135 [871-889] 3′UTR 8 GGCUUCACCAAGACCUACA 28 UGUAGGUCUUGGUGAAGCC 136 Rh, Rb [603-621] ORF 9 GGCACUCAUUGCUUGUGGA 29 UCCACAAGCAAUGAGUGCC 137 Rh [684-702] ORF 10 CUCCCAUCUUUCUUCCGGA 30 UCCGGAAGAAAGAUGGGAG 138 [867-885] 3′UTR 11 GUGUUUCCCUGUUUAUCCA 31 UGGAUAAACAGGGAAACAC 139 Rh [645-663] ORF 12 AGUCAACCAGACCACCUUA 32 UAAGGUGGUCUGGUUGACU 140 Rh [344-362] ORF 13 GCCCGGAGUGGAAGCUGAA 33 UUCAGCUUCCACUCCGGGC 141 [821-839] 3′UTR 14 CCACCUUAUACCAGCGUUA 34 UAACGCUGGUAUAAGGUGG 142 Rh, Rt, M [355-373] ORF 15 CAUGGAGAGUGUCUGCGGA 35 UCCGCAGACACUCUCCAUG 143 Rh [455-473] ORF 16 CCAAGAUGUAUAAAGGGUU 36 AACCCUUUAUACAUCUUGG 144 Rh [388-406] ORF 17 GAGAGUGUCUGCGGAUACU 37 AGUAUCCGCAGACACUCUC 145 Rh [459-477] ORF 18 AGAUCAAGAUGACCAAGAU 38 AUCUUGGUCAUCUUGAUCU 146 Rh, Dg [376-394] ORF 19 CUGCAGAGUGGCACUCAUU 39 AAUGAGUGCCACUCUGCAG 147 Rh [675-693] ORF 20 CCUGGAACAGCCUGAGCUU 40 AAGCUCAGGCUGUUCCAGG 148 [571-589] ORF 21 CACUGUUGGCUGUGAGGAA 41 UUCCUCACAGCCAACAGUG 149 Rh [620-638] ORF 22 CCAGAAGUCAACCAGACCA 42 UGGUCUGGUUGACUUCUGG 150 Rh, Dg [339-357] ORF 23 GAUGGACUCUUGCACAUCA 43 UGAUGUGCAAGAGUCCAUC 151 [531-549] ORF 24 AGUUUCUCAUUGCUGGAAA 44 UUUCCAGCAAUGAGAAACU 152 Rh [505-523] ORF 25 GCUCCUCCAAGGCUCUGAA 45 UUCAGAGCCUUGGAGGAGC 153 Rh [710-728] ORF 26 ACAGUGUUUCCCUGUUUAU 46 AUAAACAGGGAAACACUGU 154 Rh, M [642-660] ORF 27 GUCUGCGGAUACUUCCACA 47 UGUGGAAGUAUCCGCAGAC 155 Rh [465-483] ORF 28 CUGGAACAGCCUGAGCUUA 48 UAAGCUCAGGCUGUUCCAG 156 [572-590] ORF 29 GGGCUGUGCACCUGGCAGU 49 ACUGCCAGGUGCACAGCCC 157 Rh [774-792] ORF 30 GUGUCUGCGGAUACUUCCA 50 UGGAAGUAUCCGCAGACAC 158 Rh [463-481] ORF 31 AUGAGAUCAAGAUGACCAA 51 UUGGUCAUCUUGAUCUCAU 159 Rh, Dg [373-391] ORF 32 GGAAGCUGAAGCCUGCACA 52 UGUGCAGGCUUCAGCUUCC 160 [830-848] 3′UTR 33 GAGUUUCUCAUUGCUGGAA 53 UUCCAGCAAUGAGAAACUC 161 Rh [504-522] ORF 34 CAGACGGCCUUCUGCAAUU 54 AAUUGCAGAAGGCCGUCUG 162 Rh [285-303] ORF 35 GCACAUCACUACCUGCAGU 55 ACUGCAGGUAGUGAUGUGC 163 [542-560] ORF 36 GGCAGUCCCUGCGGUCCCA 56 UGGGACCGCAGGGACUGCC 164 [787-805] ORF 37 GAUGUAUAAAGGGUUCCAA 57 UUGGAACCCUUUAUACAUC 165 Rh [392-410] ORF 38 CUGGCAUCCUGUUGUUGCU 58 AGCAACAACAGGAUGCCAG 166 [217-235] ORF 39 GGACGGACCAGCUCCUCCA 59 UGGAGGAGCUGGUCCGUCC 167 Rh [700-718] ORF 40 GAGUGGCACUCAUUGCUUG 60 CAAGCAAUGAGUGCCACUC 168 Rh [680-698] ORF 41 AGAGUGUCUGCGGAUACUU 61 AAGUAUCCGCAGACACUCU 169 Rh [460-478] ORF 42 ACCAGACCACCUUAUACCA 62 UGGUAUAAGGUGGUCUGGU 170 Rh [349-367] ORF 43 CACCAAGACCUACACUGUU 63 AACAGUGUAGGUCUUGGUG 171 Rh [608-626] ORF 44 GGCAUCCUGUUGUUGCUGU 64 ACAGCAACAACAGGAUGCC 172 Rh [219-237] ORF 45 CCUGAAUCCUGCCCGGAGU 65 ACUCCGGGCAGGAUUCAGG 173 [811-829] ORF + 3′UTR 46 GUCAACCAGACCACCUUAU 66 AUAAGGUGGUCUGGUUGAC 174 Rh [345-363] ORF 47 GGACACCAGAAGUCAACCA 67 UGGUUGACUUCUGGUGUCC 175 Rh [334-352] ORF 48 AGCGUUAUGAGAUCAAGAU 68 AUCUUGAUCUCAUAACGCU 176 Rh, Dg, Rt [367-385] ORF 49 UGCACAGUGUUUCCCUGUU 69 AACAGGGAAACACUGUGCA 177 Rh, Rt, M [639-657] ORF 50 ACUGCAGAGUGGCACUCAU 70 AUGAGUGCCACUCUGCAGU 178 Rh [674-692] ORF 51 CCCAUCUUUCUUCCGGACA 71 UGUCCGGAAGAAAGAUGGG 179 [869-887] 3′UTR 52 GUGAGGAAUGCACAGUGUU 72 AACACUGUGCAUUCCUCAC 180 Rh [631-649] ORF 53 CCUCCAAGGCUCUGAAAAG 73 CUUUUCAGAGCCUUGGAGG 181 Rh [713-731] ORF 54 CAUCACUACCUGCAGUUUU 74 AAAACUGCAGGUAGUGAUG 182 [545-563] ORF 55 AGCUGAAGCCUGCACAGUG 75 CACUGUGCAGGCUUCAGCU 183 [833-851] 3′UTR 56 GCACAGUGUCCACCCUGUU 76 AACAGGGUGGACACUGUGC 184 [844-862] 3′UTR 57 CCAGCUCCUCCAAGGCUCU 77 AGAGCCUUGGAGGAGCUGG 185 Rh [707-725] ORF 58 CUGUUGUUGCUGUGGCUGA 78 UCAGCCACAGCAACAACAG 186 Rh [225-243] ORF 59 UCUUCCGGACAAUGAAAUA 79 UAUUUCAUUGUCCGGAAGA 187 [877-895] 3′UTR 60 GCUCCCUGGAACAGCCUGA 80 UCAGGCUGUUCCAGGGAGC 188 [567-585] ORF 61 AUAAAGGGUUCCAAGCCUU 81 AAGGCUUGGAACCCUUUAU 189 [397-415] ORF 62 GAGUGGAAGCUGAAGCCUG 82 CAGGCUUCAGCUUCCACUC 190 Rh [826-844] 3′UTR 63 CAAACUGCAGAGUGGCACU 83 AGUGCCACUCUGCAGUUUG 191 Rh [671-689] ORF 64 CGGCCUUCUGCAAUUCCGA 84 UCGGAAUUGCAGAAGGCCG 192 Rh [289-307] ORF 65 CUCCUCCAAGGCUCUGAAA 85 UUUCAGAGCCUUGGAGGAG 193 Rh [711-729] ORF 66 CCUGCAAACUGCAGAGUGG 86 CCACUCUGCAGUUUGCAGG 194 Rh, Dg [667-685] ORF 67 CACAUCACUACCUGCAGUU 87 AACUGCAGGUAGUGAUGUG 195 [543-561] ORF 68 UGCCCGGAGUGGAAGCUGA 88 UCAGCUUCCACUCCGGGCA 196 [820-838] 3′UTR 69 GCUUCUGGCAUCCUGUUGU 89 ACAACAGGAUGCCAGAAGC 197 [213-231] ORF 70 UUUCUUCCGGACAAUGAAA 90 UUUCAUUGUCCGGAAGAAA 198 [875-893] 3′UTR 71 UGCACAGUGUCCACCCUGU 91 ACAGGGUGGACACUGUGCA 199 [843-861] 3′UTR 72 GACCUACACUGUUGGCUGU 92 ACAGCCAACAGUGUAGGUC 200 Rh [614-632] ORF 73 CACAGACGGCCUUCUGCAA 93 UUGCAGAAGGCCGUCUGUG 201 Rh [283-301] ORF 74 AGGGCUUCCAGUCCCGUCA 94 UGACGGGACUGGAAGCCCU 202 Rh [730-748] ORF 75 CCCAGAUAGCCUGAAUCCU 95 AGGAUUCAGGCUAUCUGGG 203 [802-820] ORF + 3′UTR 76 GUUGUUGCUGUGGCUGAUA 96 UAUCAGCCACAGCAACAAC 204 Rh [227-245] ORF 77 GUCCCUGCGGUCCCAGAUA 97 UAUCUGGGACCGCAGGGAC 205 [791-809] ORF 78 CUUCCAGUCCCGUCACCUU 98 AAGGUGACGGGACUGGAAG 206 Rh [734-752] ORF 79 CCUACACUGUUGGCUGUGA 99 UCACAGCCAACAGUGUAGG 207 Rh [616-634] ORF 80 ACAUCACUACCUGCAGUUU 100 AAACUGCAGGUAGUGAUGU 208 [544-562] ORF 81 UCUUUCUUCCGGACAAUGA 101 UCAUUGUCCGGAAGAAAGA 209 [873-891] 3′UTR 82 CCAGAUAGCCUGAAUCCUG 102 CAGGAUUCAGGCUAUCUGG 210 [803-821] ORF + 3′UTR 83 CAGUGUUUCCCUGUUUAUC 103 GAUAAACAGGGAAACACUG 211 Rh, M [643-661] ORF 84 CUGGCUUCUGGCAUCCUGU 104 ACAGGAUGCCAGAAGCCAG 212 [210-228] ORF 85 GACGGACCAGCUCCUCCAA 105 UUGGAGGAGCUGGUCCGUC 213 Rh [701-719] ORF 86 UGUUGUUGCUGUGGCUGAU 106 AUCAGCCACAGCAACAACA 214 Rh [226-244] ORF 87 GACUCUUGCACAUCACUAC 107 GUAGUGAUGUGCAAGAGUC 215 [535-553] ORF 88 CCCGCCAUGGAGAGUGUCU 108 AGACACUCUCCAUGGCGGG 216 Rh [450-468] ORF 89 CGAGGAGUUUCUCAUUGCU 109 AGCAAUGAGAAACUCCUCG 217 Rh [500-518] ORF 90 CACAGGUCCCACAACCGCA 110 UGCGGUUGUGGGACCUGUG 218 Rh [480-498] ORF 91 ACACCAGAAGUCAACCAGA 111 UCUGGUUGACUUCUGGUGU 219 Rh [336-354] ORF 92 UGUUCCCACUCCCAUCUUU 112 AAAGAUGGGAGUGGGAACA 220 Rh [859-877] 3′UTR 93 CCCUGUUCCCACUCCCAUC 113 GAUGGGAGUGGGAACAGGG 221 Rh [856-874] 3′UTR 94 CACCUUAUACCAGCGUUAU 114 AUAACGCUGGUAUAAGGUG 222 Rh, Rt, M [356-374] ORF 95 CACCAGAAGUCAACCAGAC 115 GUCUGGUUGACUUCUGGUG 223 Rh [337-355] ORF 96 UCCUCCAAGGCUCUGAAAA 116 UUUUCAGAGCCUUGGAGGA 224 Rh [712-730] ORF 97 GAAGCCUGCACAGUGUCCA 117 UGGACACUGUGCAGGCUUC 225 [837-855] 3′UTR 98 CCUGCACAGUGUCCACCCU 118 AGGGUGGACACUGUGCAGG 226 [841-859] 3′UTR 99 CCGCCAUGGAGAGUGUCUG 119 CAGACACUCUCCAUGGCGG 227 Rh [451-469] ORF 100 UAAAGGGUUCCAAGCCUUA 120 UAAGGCUUGGAACCCUUUA 228 [398-416] ORF 101 CAAGAUGACCAAGAUGUAU 121 AUACAUCUUGGUCAUCUUG 229 Rh [380-398] ORF 102 GUUUUGUGGCUCCCUGGAA 122 UUCCAGGGAGCCACAAAAC 230 [559-577] ORF 103 GGAGUGGAAGCUGAAGCCU 123 AGGCUUCAGCUUCCACUCC 231 Rh [825-843] 3′UTR 104 CUGACAUCCGGUUCGUCUA 124 UAGACGAACCGGAUGUCAG 232 Rh [427-445] ORF 105 GCGUUAUGAGAUCAAGAUG 125 CAUCUUGAUCUCAUAACGC 233 Rh, Dg, Rt [368-386] ORF 106 CGGACCAGCUCCUCCAAGG 126 CCUUGGAGGAGCUGGUCCG 234 Rh [703-721] ORF 107 CAGGAUGGACUCUUGCACA 127 UGUGCAAGAGUCCAUCCUG 235 [528-546] ORF 108 CAAGAUGUAUAAAGGGUUC 128 GAACCCUUUAUACAUCUUG 236 Rh [389-407] ORF

TABLE A2 19-mer Cross-Species siTIMP1 SEQ SEQ ID ID human-73858576 No. Sense (5′>3′) NO. Antisense (5′>3′) NO. Other Sp ORF: 193-816 1 ACCACCUUAUACCAGCGUU 237 AACGCUGGUAUAAGGUGGU 252 Rh, Rt, M [354-372] ORF 2 ACCGCAGCGAGGAGUUUCU 238 AGAAACUCCUCGCUGCGGU 253 Rh, Rb, Dg, Rt [493-511] ORF 3 AGACCACCUUAUACCAGCG 239 CGCUGGUAUAAGGUGGUCU 254 Rh, Rt, M [352-370] ORF 4 GGGCUUCACCAAGACCUAC 240 GUAGGUCUUGGUGAAGCCC 255 Rh, Rb, Dg [602-620] ORF 5 CAACCGCAGCGAGGAGUUU 241 AAACUCCUCGCUGCGGUUG 256 Rh, Rb, Dg, Rt [491-509] ORF 6 CAGACCACCUUAUACCAGC 242 GCUGGUAUAAGGUGGUCUG 257 Rh, Rt, M [351-369] ORF 7 ACCUUAUACCAGCGUUAUG 243 CAUAACGCUGGUAUAAGGU 258 Rh, Rt, M [357-375] ORF 8 CGUCAUCAGGGCCAAGUUC 244 GAACUUGGCCCUGAUGACG 259 Rh, Rb, Dg [311-329] ORF 9 AUGCACAGUGUUUCCCUGU 245 ACAGGGAAACACUGUGCAU 260 Rh, Rt, M [638-656] ORF 10 ACCUGGCAGUCCCUGCGGU 246 ACCGCAGGGACUGCCAGGU 261 Rh, Rb, Dg [783-801] ORF 11 GACCACCUUAUACCAGCGU 247 ACGCUGGUAUAAGGUGGUC 262 Rh, Rt, M [353-371] ORF 12 CCGCAGCGAGGAGUUUCUC 248 GAGAAACUCCUCGCUGCGG 263 Rh, Rb, Dg, Rt [494-512] ORF 13 AACCGCAGCGAGGAGUUUC 249 GAAACUCCUCGCUGCGGUU 264 Rh, Rb, Dg, Rt [492-510] ORF 14 UUAUGAGAUCAAGAUGACC 250 GGUCAUCUUGAUCUCAUAA 265 Rh, Dg, Rt [371-389] ORF 15 ACCAGCGUUAUGAGAUCAA 251 UUGAUCUCAUAACGCUGGU 266 Rh, Rt [364-382] ORF

TABLE A3 Preferred 19-mer siTIMP1 SEQ SEQ human- ID ID 73858576 siTIMP1_pNo. Sense (5′>3′) NO. Antisense (5′>3′) NO. length ORF: 193-816 siTIMP1_p2 GCACAGUGUUUCCCUGUUU 267 AAACAGGGAAACACUGUGC 299 19 [640-658] ORF siTIMP1_p6 CCACCUUAUACCAGCGUUA 268 UAACGCUGGUAUAAGGUGG 300 19 [355-373] ORF siTIMP1_p14 UGCACAGUGUUUCCCUGUU 269 AACAGGGAAACACUGUGCA 301 19 [639-657] ORF siTIMP1_p16 CACCUUAUACCAGCGUUAU 270 AUAACGCUGGUAUAAGGUG 302 19 [356-374] ORF siTIMP1_p17 GCGUUAUGAGAUCAAGAUG 271 CAUCUUGAUCUCAUAACGC 303 19 [368-386] ORF siTIMP1_p19 ACCACCUUAUACCAGCGUU 272 AACGCUGGUAUAAGGUGGU 304 19 [354-372] ORF siTIMP1_p20 ACCGCAGCGAGGAGUUUCU 273 AGAAACUCCUCGCUGCGGU 305 19 [493-511] ORF siTIMP1_p21 ACCAGCGUUAUGAGAUCAA 274 UUGAUCUCAUAACGCUGGU 306 19 [364-382] ORF siTIMP1_p23 CAACCGCAGCGAGGAGUUU 275 AAACUCCUCGCUGCGGUUG 307 19 [491-509] ORF siTIMP1_p24 CAGACCACCUUAUACCAGC 276 GCUGGUAUAAGGUGGUCUG 308 19 [351-369] ORF siTIMP1_p27 AGAUCAAGAUGACCAAGAU 277 AUCUUGGUCAUCUUGAUCU 309 19 [376-394] ORF siTIMP1_p29 CCAGAAGUCAACCAGACCA 278 UGGUCUGGUUGACUUCUGG 310 19 [339-357] ORF siTIMP1_p31 AUGAGAUCAAGAUGACCAA 279 UUGGUCAUCUUGAUCUCAU 311 19 [373-391] ORF siTIMP1_p33 CCUGCAAACUGCAGAGUGG 280 CCACUCUGCAGUUUGCAGG 312 19 [667-685] ORF siTIMP1_p38 CACAGUGUUUCCCUGUUUA 281 UAAACAGGGAAACACUGUG 313 19 [641-659] ORF siTIMP1_p42 ACAGUGUUUCCCUGUUUAU 282 AUAAACAGGGAAACACUGU 314 19 [642-660] ORF siTIMP1_p43 CAGUGUUUCCCUGUUUAUC 283 GAUAAACAGGGAAACACUG 315 19 [643-661] ORF siTIMP1_p45 CUUUCUUCCGGACAAUGAA 284 UUCAUUGUCCGGAAGAAAG 316 19 [874-892] 3′UTR siTIMP1_p49 GUUUCUCAUUGCUGGAAAA 285 UUUUCCAGCAAUGAGAAAC 317 19 [506-524] ORF siTIMP1_p60 CAUCUUUCUUCCGGACAAU 286 AUUGUCCGGAAGAAAGAUG 318 19 [871-889] 3′UTR siTIMP1_p71 CUCCCAUCUUUCUUCCGGA 287 UCCGGAAGAAAGAUGGGAG 319 19 [867-885] 3′UTR siTIMP1_p73 GUGUUUCCCUGUUUAUCCA 288 UGGAUAAACAGGGAAACAC 320 19 [645-663] ORF siTIMP1_p77 GCCCGGAGUGGAAGCUGAA 289 UUCAGCUUCCACUCCGGGC 321 19 [821-839] 3′UTR siTIMP1_p78 CAUGGAGAGUGUCUGCGGA 290 UCCGCAGACACUCUCCAUG 322 19 [455-473] ORF siTIMP1_p79 CCAAGAUGUAUAAAGGGUU 291 AACCCUUUAUACAUCUUGG 323 19 [388-406] ORF siTIMP1_p85 GAGAGUGUCUGCGGAUACU 292 AGUAUCCGCAGACACUCUC 324 19 [459-477] ORF siTIMP1_p89 CUGCAGAGUGGCACUCAUU 293 AAUGAGUGCCACUCUGCAG 325 19 [675-693] ORF siTIMP1_p91 CCUGGAACAGCCUGAGCUU 294 AAGCUCAGGCUGUUCCAGG 326 19 [571-589] ORF siTIMP1_p96 CACUGUUGGCUGUGAGGAA 295 UUCCUCACAGCCAACAGUG 327 19 [620-638] ORF siTIMP1_p98 GAUGGACUCUUGCACAUCA 296 UGAUGUGCAAGAGUCCAUC 328 19 [531-549] ORF siTIMP1_p99 AGUUUCUCAUUGCUGGAAA 297 UUUCCAGCAAUGAGAAACU 329 19 [505-523] ORF siTIMP1_p108 GUCUGCGGAUACUUCCACA 298 UGUGGAAGUAUCCGCAGAC 330 19 [465-483] ORF

TABLE A4 19-mer siTIMP1 with lowest predicted OT effect SEQ SEQ No. in TABLE ID ID A3 Cross species Ranking Sense (5′>3′) NO. Antisense (5′>3′) NO. siTIMP1_p2 H/Rt 3 GCACAGUGUUUCCCUGUUU 267 AAACAGGGAAACACUGUGC 299 siTIMP1_p6 H/Rt 2 CCACCUUAUACCAGCGUUA 268 UAACGCUGGUAUAAGGUGG 300 siTIMP1_p14 H/Rt 4 UGCACAGUGUUUCCCUGUU 269 AACAGGGAAACACUGUGCA 301 siTIMP1_p16 H/Rt 1 CACCUUAUACCAGCGUUAU 270 AUAACGCUGGUAUAAGGUG 302 siTIMP1_p17 H/Rt 2 GCGUUAUGAGAUCAAGAUG 271 CAUCUUGAUCUCAUAACGC 303 siTIMP1_p19 H/Rt 2 ACCACCUUAUACCAGCGUU 272 AACGCUGGUAUAAGGUGGU 304 siTIMP1_p20 H/Rt 3 ACCGCAGCGAGGAGUUUCU 273 AGAAACUCCUCGCUGCGGU 305 siTIMP1_p21 H/Rt 3 ACCAGCGUUAUGAGAUCAA 274 UUGAUCUCAUAACGCUGGU 306 siTIMP1_p23 H/Rt 3 CAACCGCAGCGAGGAGUUU 275 AAACUCCUCGCUGCGGUUG 307 siTIMP1_p29 Other (w/o Rt) 3 CCAGAAGUCAACCAGACCA 278 UGGUCUGGUUGACUUCUGG 310 siTIMP1_p33 Other (w/o Rt) 4 CCUGCAAACUGCAGAGUGG 280 CCACUCUGCAGUUUGCAGG 312 siTIMP1_p38 H/Rt (Rt Cross- 3 CACAGUGUUUCCCUGUUUA 281 UAAACAGGGAAACACUGUG 313 with 1MM) siTIMP1_p42 Other (w/o Rt) 3 ACAGUGUUUCCCUGUUUAU 282 AUAAACAGGGAAACACUGU 314 siTIMP1_p43 Other (w/o Rt) 3 CAGUGUUUCCCUGUUUAUC 283 GAUAAACAGGGAAACACUG 315 siTIMP1_p45 H +/− Rh 4 CUUUCUUCCGGACAAUGAA 284 UUCAUUGUCCGGAAGAAAG 316 siTIMP1_p60 H +/− Rh 2 CAUCUUUCUUCCGGACAAU 286 AUUGUCCGGAAGAAAGAUG 318 siTIMP1_p71 H +/− Rh 4 CUCCCAUCUUUCUUCCGGA 287 UCCGGAAGAAAGAUGGGAG 319 siTIMP1_p73 H +/− Rh 3 GUGUUUCCCUGUUUAUCCA 288 UGGAUAAACAGGGAAACAC 320 siTIMP1_p78 H +/− Rh 3 CAUGGAGAGUGUCUGCGGA 290 UCCGCAGACACUCUCCAUG 322 siTIMP1_p79 H +/− Rh 3 CCAAGAUGUAUAAAGGGUU 291 AACCCUUUAUACAUCUUGG 323 siTIMP1_p85 H +/− Rh 2 GAGAGUGUCUGCGGAUACU 292 AGUAUCCGCAGACACUCUC 324 siTIMP1_p89 H +/− Rh 3 CUGCAGAGUGGCACUCAUU 293 AAUGAGUGCCACUCUGCAG 325 siTIMP1_p91 H +/− Rh 4 CCUGGAACAGCCUGAGCUU 294 AAGCUCAGGCUGUUCCAGG 326 siTIMP1_p96 H +/− Rh 4 CACUGUUGGCUGUGAGGAA 295 UUCCUCACAGCCAACAGUG 327 siTIMP1_p98 H +/− Rh 3 GAUGGACUCUUGCACAUCA 296 UGAUGUGCAAGAGUCCAUC 328 siTIMP1_p99 H +/− Rh 4 AGUUUCUCAUUGCUGGAAA 297 UUUCCAGCAAUGAGAAACU 329 siTIMP1_p108 H +/− Rh 2 GUCUGCGGAUACUUCCACA 298 UGUGGAAGUAUCCGCAGAC 330

TABLE A5 18-mer siTIMP1 SEQ SEQ ID ID human-73858576 No. Sense (5′>3′) NO. Antisense (5′>3′) NO. Other Sp ORF: 193-816 1 GGAGAGUGUCUGCGGAUA 331 UAUCCGCAGACACUCUCC 582 Rh [458-475] ORF 2 GCUGAAGCCUGCACAGUG 332 CACUGUGCAGGCUUCAGC 583 [834-851] 3′UTR 3 CAUCUUUCUUCCGGACAA 333 UUGUCCGGAAGAAAGAUG 584 [871-888] 3′UTR 4 CCUCCAAGGCUCUGAAAA 334 UUUUCAGAGCCUUGGAGG 585 Rh [713-730] ORF 5 CCGCCAUGGAGAGUGUCU 335 AGACACUCUCCAUGGCGG 586 Rh [451-468] ORF 6 GAGUGUCUGCGGAUACUU 336 AAGUAUCCGCAGACACUC 587 Rh [461-478] ORF 7 GAGUGGCACUCAUUGCUU 337 AAGCAAUGAGUGCCACUC 588 Rh [680-697] ORF 8 AGCUGAAGCCUGCACAGU 338 ACUGUGCAGGCUUCAGCU 589 [833-850] 3′UTR 9 AGAUCAAGAUGACCAAGA 339 UCUUGGUCAUCUUGAUCU 590 Rh, Dg [376-393] ORF 10 GACUCUUGCACAUCACUA 340 UAGUGAUGUGCAAGAGUC 591 [535-552] ORF 11 GAGUGGAAGCUGAAGCCU 341 AGGCUUCAGCUUCCACUC 592 Rh [826-843] 3′UTR 12 CCUGCAAACUGCAGAGUG 342 CACUCUGCAGUUUGCAGG 593 Rh, Dg [667-684] ORF 13 CAGUGUUUCCCUGUUUAU 343 AUAAACAGGGAAACACUG 594 Rh, Ms [643-660] ORF 14 CCCUGUUCCCACUCCCAU 344 AUGGGAGUGGGAACAGGG 595 Rh [856-873] 3′UTR 15 CCAGAUAGCCUGAAUCCU 345 AGGAUUCAGGCUAUCUGG 596 [803-820] ORF + 3′UTR 16 GGUCCCAGAUAGCCUGAA 346 UUCAGGCUAUCUGGGACC 597 [799-816] ORF 17 GGGCUUCACCAAGACCUA 347 UAGGUCUUGGUGAAGCCC 598 Rh, Rb, Dg [602-619] ORF 18 GCGGAUACUUCCACAGGU 348 ACCUGUGGAAGUAUCCGC 599 Rh [469-486] ORF 19 GAGAGUGUCUGCGGAUAC 349 GUAUCCGCAGACACUCUC 600 Rh [459-476] ORF 20 GCGUUAUGAGAUCAAGAU 350 AUCUUGAUCUCAUAACGC 601 Rh, Dg, Rt [368-385] ORF 21 GGAACAGCCUGAGCUUAG 351 CUAAGCUCAGGCUGUUCC 602 [574-591] ORF 22 CUGAAAAGGGCUUCCAGU 352 ACUGGAAGCCCUUUUCAG 603 Rh [724-741] ORF 23 CCAGCGUUAUGAGAUCAA 353 UUGAUCUCAUAACGCUGG 604 Rh, Rt [365-382] ORF 24 CAACCAGACCACCUUAUA 354 UAUAAGGUGGUCUGGUUG 605 Rh [347-364] ORF 25 GAGGAAUGCACAGUGUUU 355 AAACACUGUGCAUUCCUC 606 Rh [633-650] ORF 26 CCAAGAUGUAUAAAGGGU 356 ACCCUUUAUACAUCUUGG 607 Rh [388-405] ORF 27 CAGACCACCUUAUACCAG 357 CUGGUAUAAGGUGGUCUG 608 Rh, Rt, Ms [351-368] ORF 28 AGUGGAAGCUGAAGCCUG 358 CAGGCUUCAGCUUCCACU 609 Rh [827-844] 3′UTR 29 ACAGUGUUUCCCUGUUUA 359 UAAACAGGGAAACACUGU 610 Rh, Ms [642-659] ORF 30 CGCCAUGGAGAGUGUCUG 360 CAGACACUCUCCAUGGCG 611 Rh [452-469] ORF 31 CACCAGAAGUCAACCAGA 361 UCUGGUUGACUUCUGGUG 612 Rh [337-354] ORF 32 CAGAAGUCAACCAGACCA 362 UGGUCUGGUUGACUUCUG 613 Rh [340-357] ORF 33 CCCACUCCCAUCUUUCUU 363 AAGAAAGAUGGGAGUGGG 614 Rh [863-880] 3′UTR 34 GCGAGGAGUUUCUCAUUG 364 CAAUGAGAAACUCCUCGC 615 Rh [499-516] ORF 35 GCUUCACCAAGACCUACA 365 UGUAGGUCUUGGUGAAGC 616 Rh [604-621] ORF 36 CAUCACUACCUGCAGUUU 366 AAACUGCAGGUAGUGAUG 617 [545-562] ORF 37 AGCGUUAUGAGAUCAAGA 367 UCUUGAUCUCAUAACGCU 618 Rh, Dg, Rt [367-384] ORF 38 CUGCAGAGUGGCACUCAU 368 AUGAGUGCCACUCUGCAG 619 Rh [675-692] ORF 39 GAAGCUGAAGCCUGCACA 369 UGUGCAGGCUUCAGCUUC 620 [831-848] 3′UTR 40 AUCACUACCUGCAGUUUU 370 AAAACUGCAGGUAGUGAU 621 [546-563] ORF 41 GCACAGUGUUUCCCUGUU 371 AACAGGGAAACACUGUGC 622 Rh, Rt, Ms [640-657] ORF 42 CCUGGAACAGCCUGAGCU 372 AGCUCAGGCUGUUCCAGG 623 [571-588] ORF 43 GCAUCCUGUUGUUGCUGU 373 ACAGCAACAACAGGAUGC 624 Rh [220-237] ORF 44 GUCCCAGAUAGCCUGAAU 374 AUUCAGGCUAUCUGGGAC 625 [800-817] ORF + 3′UTR 45 AGUGUUUCCCUGUUUAUC 375 GAUAAACAGGGAAACACU 626 Rh, Ms [644-661] ORF 46 GGCUGUGAGGAAUGCACA 376 UGUGCAUUCCUCACAGCC 627 Rh [627-644] ORF 47 AGACCACCUUAUACCAGC 377 GCUGGUAUAAGGUGGUCU 628 Rh, Rt, Ms [352-369] ORF 48 GGAUGGACUCUUGCACAU 378 AUGUGCAAGAGUCCAUCC 629 [530-547] ORF 49 CGGACCAGCUCCUCCAAG 379 CUUGGAGGAGCUGGUCCG 630 Rh [703-720] ORF 50 GGCCUUCUGCAAUUCCGA 380 UCGGAAUUGCAGAAGGCC 631 Rh [290-307] ORF 51 GGGCUUCCAGUCCCGUCA 381 UGACGGGACUGGAAGCCC 632 Rh [731-748] ORF 52 GCAGAGUGGCACUCAUUG 382 CAAUGAGUGCCACUCUGC 633 Rh [677-694] ORF 53 CAGCGAGGAGUUUCUCAU 383 AUGAGAAACUCCUCGCUG 634 Rh, Rb, Rt [497-514] ORF 54 CAGAUAGCCUGAAUCCUG 384 CAGGAUUCAGGCUAUCUG 635 [804-821] ORF + 3′UTR 55 GCAGCGAGGAGUUUCUCA 385 UGAGAAACUCCUCGCUGC 636 Rh, Rb, Rt [496-513] ORF 56 CCUGCAGUUUUGUGGCUC 386 GAGCCACAAAACUGCAGG 637 [553-570] ORF 57 GUUAUGAGAUCAAGAUGA 387 UCAUCUUGAUCUCAUAAC 638 Rh, Dg, Rt [370-387] ORF 58 CAAGAUGUAUAAAGGGUU 388 AACCCUUUAUACAUCUUG 639 Rh [389-406] ORF 59 CCGGAGUGGAAGCUGAAG 389 CUUCAGCUUCCACUCCGG 640 Rh [823-840] 3′UTR 60 AGGAGUUUCUCAUUGCUG 390 CAGCAAUGAGAAACUCCU 641 Rh [502-519] ORF 61 GGCUGUGCACCUGGCAGU 391 ACUGCCAGGUGCACAGCC 642 Rh [775-792] ORF 62 GUUUCCCUGUUUAUCCAU 392 AUGGAUAAACAGGGAAAC 643 Rh [647-664] ORF 63 GCAGUUUUGUGGCUCCCU 393 AGGGAGCCACAAAACUGC 644 [556-573] ORF 64 GUCAACCAGACCACCUUA 394 UAAGGUGGUCUGGUUGAC 645 Rh [345-362] ORF 65 CCAUGGAGAGUGUCUGCG 395 CGCAGACACUCUCCAUGG 646 Rh [454-471] ORF 66 CUGGCAUCCUGUUGUUGC 396 GCAACAACAGGAUGCCAG 647 [217-234] ORF 67 CAGACGGCCUUCUGCAAU 397 AUUGCAGAAGGCCGUCUG 648 Rh [285-302] ORF 68 ACUGCAGAGUGGCACUCA 398 UGAGUGCCACUCUGCAGU 649 Rh [674-691] ORF 69 CGGAGUGGAAGCUGAAGC 399 GCUUCAGCUUCCACUCCG 650 Rh [824-841] 3′UTR 70 GCCUCGGGAGCCAGGGCU 400 AGCCCUGGCUCCCGAGGC 651 Rh [761-778] ORF 71 CCAGACCACCUUAUACCA 401 UGGUAUAAGGUGGUCUGG 652 Rh [350-367] ORF 72 GGCUCUGAAAAGGGCUUC 402 GAAGCCCUUUUCAGAGCC 653 Rh [720-737] ORF 73 GCUGGAAAACUGCAGGAU 403 AUCCUGCAGUUUUCCAGC 654 [516-533] ORF 74 CCUGAAUCCUGCCCGGAG 404 CUCCGGGCAGGAUUCAGG 655 [811-828] ORF + 3′UTR 75 CUGAAGCCUGCACAGUGU 405 ACACUGUGCAGGCUUCAG 656 [835-852] 3′UTR 76 GGCAUCCUGUUGUUGCUG 406 CAGCAACAACAGGAUGCC 657 Rh [219-236] ORF 77 CCCUGCAAACUGCAGAGU 407 ACUCUGCAGUUUGCAGGG 658 Rh, Dg [666-683] ORF 78 CUGGAAAACUGCAGGAUG 408 CAUCCUGCAGUUUUCCAG 659 [517-534] ORF 79 UCUCAUUGCUGGAAAACU 409 AGUUUUCCAGCAAUGAGA 660 Rh [509-526] ORF 80 GUGGCUCCCUGGAACAGC 410 GCUGUUCCAGGGAGCCAC 661 [564-581] ORF 81 CCAGCUCCUCCAAGGCUC 411 GAGCCUUGGAGGAGCUGG 662 Rh [707-724] ORF 82 AGACCUACACUGUUGGCU 412 AGCCAACAGUGUAGGUCU 663 Rh [613-630] ORF 83 GGGACACCAGAAGUCAAC 413 GUUGACUUCUGGUGUCCC 664 Rh [333-350] ORF 84 GGCUCCCUGGAACAGCCU 414 AGGCUGUUCCAGGGAGCC 665 [566-583] ORF 85 GUUCCCACUCCCAUCUUU 415 AAAGAUGGGAGUGGGAAC 666 Rh [860-877] 3′UTR 86 CUCUGAAAAGGGCUUCCA 416 UGGAAGCCCUUUUCAGAG 667 Rh [722-739] ORF 87 GGCUUCUGGCAUCCUGUU 417 AACAGGAUGCCAGAAGCC 668 [212-229] ORF 88 AGGAAUGCACAGUGUUUC 418 GAAACACUGUGCAUUCCU 669 Rh [634-651] ORF 89 CUUCUGGCAUCCUGUUGU 419 ACAACAGGAUGCCAGAAG 670 [214-231] ORF 90 CAAACUGCAGAGUGGCAC 420 GUGCCACUCUGCAGUUUG 671 Rh [671-688] ORF 91 AUACCAGCGUUAUGAGAU 421 AUCUCAUAACGCUGGUAU 672 Rh, Rt [362-379] ORF 92 AGAGUGUCUGCGGAUACU 422 AGUAUCCGCAGACACUCU 673 Rh [460-477] ORF 93 CACCAAGACCUACACUGU 423 ACAGUGUAGGUCUUGGUG 674 Rh [608-625] ORF 94 GAUCAAGAUGACCAAGAU 424 AUCUUGGUCAUCUUGAUC 675 Rh, Dg [377-394] ORF 95 AUGUAUAAAGGGUUCCAA 425 UUGGAACCCUUUAUACAU 676 [393-410] ORF 96 ACCAAGACCUACACUGUU 426 AACAGUGUAGGUCUUGGU 677 Rh [609-626] ORF 97 CCGUCACCUUGCCUGCCU 427 AGGCAGGCAAGGUGACGG 678 Rh [743-760] ORF 98 GGGAGCCAGGGCUGUGCA 428 UGCACAGCCCUGGCUCCC 679 Rh [766-783] ORF 99 UGCACAGUGUUUCCCUGU 429 ACAGGGAAACACUGUGCA 680 Rh, Rt, Ms [639-656] ORF 100 UGCAGAGUGGCACUCAUU 430 AAUGAGUGCCACUCUGCA 681 Rh [676-693] ORF 101 GUGAGGAAUGCACAGUGU 431 ACACUGUGCAUUCCUCAC 682 Rh [631-648] ORF 102 AGCGAGGAGUUUCUCAUU 432 AAUGAGAAACUCCUCGCU 683 Rh [498-515] ORF 103 GGGCUGUGCACCUGGCAG 433 CUGCCAGGUGCACAGCCC 684 Rh [774-791] ORF 104 ACUCAUUGCUUGUGGACG 434 CGUCCACAAGCAAUGAGU 685 Rh [687-704] ORF 105 UGUUGUUGCUGUGGCUGA 435 UCAGCCACAGCAACAACA 686 Rh [226-243] ORF 106 UGAGGAAUGCACAGUGUU 436 AACACUGUGCAUUCCUCA 687 Rh [632-649] ORF 107 CCUGGCUUCUGGCAUCCU 437 AGGAUGCCAGAAGCCAGG 688 [209-226] ORF 108 GCACAGUGUCCACCCUGU 438 ACAGGGUGGACACUGUGC 689 [844-861] 3′UTR 109 AAAGGGUUCCAAGCCUUA 439 UAAGGCUUGGAACCCUUU 690 [399-416] ORF 110 GCUUCUGGCAUCCUGUUG 440 CAACAGGAUGCCAGAAGC 691 [213-230] ORF 111 CCAAGACCUACACUGUUG 441 CAACAGUGUAGGUCUUGG 692 Rh [610-627] ORF 112 AAGGGUUCCAAGCCUUAG 442 CUAAGGCUUGGAACCCUU 693 [400-417] ORF 113 UGCACAGUGUCCACCCUG 443 CAGGGUGGACACUGUGCA 694 [843-860] 3′UTR 114 GACCUACACUGUUGGCUG 444 CAGCCAACAGUGUAGGUC 695 Rh [614-631] ORF 115 CCCAGAUAGCCUGAAUCC 445 GGAUUCAGGCUAUCUGGG 696 [802-819] ORF + 3′UTR 116 GGGUUCCAAGCCUUAGGG 446 CCCUAAGGCUUGGAACCC 697 [402-419] ORF 117 GGCUUCCAGUCCCGUCAC 447 GUGACGGGACUGGAAGCC 698 Rh [732-749] ORF 118 AGUGUCUGCGGAUACUUC 448 GAAGUAUCCGCAGACACU 699 Rh [462-479] ORF 119 UGACCAAGAUGUAUAAAG 449 CUUUAUACAUCUUGGUCA 700 Rh [385-402] ORF 120 CAGCCUGAGCUUAGCUCA 450 UGAGCUAAGCUCAGGCUG 701 [578-595] ORF 121 CUUCCGGACAAUGAAAUA 451 UAUUUCAUUGUCCGGAAG 702 [878-895] 3′UTR 122 CUGUGAGGAAUGCACAGU 452 ACUGUGCAUUCCUCACAG 703 Rh [629-646] ORF 123 GCCUGAAUCCUGCCCGGA 453 UCCGGGCAGGAUUCAGGC 704 [810-827] ORF + 3′UTR 124 ACUGCAGGAUGGACUCUU 454 AAGAGUCCAUCCUGCAGU 705 [524-541] ORF 125 GUCCCACAACCGCAGCGA 455 UCGCUGCGGUUGUGGGAC 706 Rh [485-502] ORF 126 AUCUUUCUUCCGGACAAU 456 AUUGUCCGGAAGAAAGAU 707 [872-889] 3′UTR 127 AUAAAGGGUUCCAAGCCU 457 AGGCUUGGAACCCUUUAU 708 [397-414] ORF 128 UCCCAUCUUUCUUCCGGA 458 UCCGGAAGAAAGAUGGGA 709 [868-885] 3′UTR 129 GAAAAGGGCUUCCAGUCC 459 GGACUGGAAGCCCUUUUC 710 Rh [726-743] ORF 130 UGGAACAGCCUGAGCUUA 460 UAAGCUCAGGCUGUUCCA 711 [573-590] ORF 131 CACCUUAUACCAGCGUUA 461 UAACGCUGGUAUAAGGUG 712 Rh, Rt, Ms [356-373] ORF 132 CUGUUGGCUGUGAGGAAU 462 AUUCCUCACAGCCAACAG 713 Rh [622-639] ORF 133 GCACAUCACUACCUGCAG 463 CUGCAGGUAGUGAUGUGC 714 [542-559] ORF 134 UGCUGUGGCUGAUAGCCC 464 GGGCUAUCAGCCACAGCA 715 Rh [232-249] ORF 135 CCACUCCCAUCUUUCUUC 465 GAAGAAAGAUGGGAGUGG 716 Rh [864-881] 3′UTR 136 CUGGCUUCUGGCAUCCUG 466 CAGGAUGCCAGAAGCCAG 717 [210-227] ORF 137 CUUCCACAGGUCCCACAA 467 UUGUGGGACCUGUGGAAG 718 Rh [476-493] ORF 138 ACCAGCUCCUCCAAGGCU 468 AGCCUUGGAGGAGCUGGU 719 Rh [706-723] ORF 139 CAAGAUGACCAAGAUGUA 469 UACAUCUUGGUCAUCUUG 720 Rh [380-397] ORF 140 CCCGCCAUGGAGAGUGUC 470 GACACUCUCCAUGGCGGG 721 Rh [450-467] ORF 141 CCCGGAGUGGAAGCUGAA 471 UUCAGCUUCCACUCCGGG 722 Rh [822-839] 3′UTR 142 CGAGGAGUUUCUCAUUGC 472 GCAAUGAGAAACUCCUCG 723 Rh [500-517] ORF 143 CACAUCACUACCUGCAGU 473 ACUGCAGGUAGUGAUGUG 724 [543-560] ORF 144 CUCCAAGGCUCUGAAAAG 474 CUUUUCAGAGCCUUGGAG 725 Rh [714-731] ORF 145 UGAGAUCAAGAUGACCAA 475 UUGGUCAUCUUGAUCUCA 726 Rh, Dg [374-391] ORF 146 GCACUCAUUGCUUGUGGA 476 UCCACAAGCAAUGAGUGC 727 Rh, Rb [685-702] ORF 147 CAUUGCUUGUGGACGGAC 477 GUCCGUCCACAAGCAAUG 728 Rh [690-707] ORF 148 GGACCAGCUCCUCCAAGG 478 CCUUGGAGGAGCUGGUCC 729 Rh [704-721] ORF 149 GCCUGCACAGUGUCCACC 479 GGUGGACACUGUGCAGGC 730 [840-857] 3′UTR 150 UGUAUAAAGGGUUCCAAG 480 CUUGGAACCCUUUAUACA 731 [394-411] ORF 151 CCUGCACAGUGUCCACCC 481 GGGUGGACACUGUGCAGG 732 [841-858] 3′UTR 152 ACCUUAUACCAGCGUUAU 482 AUAACGCUGGUAUAAGGU 733 Rh, Rt, Ms [357-374] ORF 153 CUUCCAGUCCCGUCACCU 483 AGGUGACGGGACUGGAAG 734 Rh [734-751] ORF 154 CAGUGUCCACCCUGUUCC 484 GGAACAGGGUGGACACUG 735 [847-864] 3′UTR 155 GGAGUGGAAGCUGAAGCC 485 GGCUUCAGCUUCCACUCC 736 Rh [825-842] 3′UTR 156 CUUAUACCAGCGUUAUGA 486 UCAUAACGCUGGUAUAAG 737 Rh, Rt [359-376] ORF 157 CCGCAGCGAGGAGUUUCU 487 AGAAACUCCUCGCUGCGG 738 Rh, Rb, Dg, Rt [494-511] ORF 158 CAGUUUUGUGGCUCCCUG 488 CAGGGAGCCACAAAACUG 739 [557-574] ORF 159 GUAUAAAGGGUUCCAAGC 489 GCUUGGAACCCUUUAUAC 740 [395-412] ORF 160 AAGCCUGCACAGUGUCCA 490 UGGACACUGUGCAGGCUU 741 [838-855] 3′UTR 161 AGGAUGGACUCUUGCACA 491 UGUGCAAGAGUCCAUCCU 742 [529-546] ORF 162 AUGGAGAGUGUCUGCGGA 492 UCCGCAGACACUCUCCAU 743 Rh [456-473] ORF 163 GCCUUCUGCAAUUCCGAC 493 GUCGGAAUUGCAGAAGGC 744 Rh [291-308] ORF 164 CUUCUGCAAUUCCGACCU 494 AGGUCGGAAUUGCAGAAG 745 Rh [293-310] ORF 165 AGACGGCCUUCUGCAAUU 495 AAUUGCAGAAGGCCGUCU 746 Rh [286-303] ORF 166 GCAGGAUGGACUCUUGCA 496 UGCAAGAGUCCAUCCUGC 747 [527-544] ORF 167 GCUUGUGGACGGACCAGC 497 GCUGGUCCGUCCACAAGC 748 Rh [694-711] ORF 168 AGAAGUCAACCAGACCAC 498 GUGGUCUGGUUGACUUCU 749 Rh [341-358] ORF 169 CUGUGCACCUGGCAGUCC 499 GGACUGCCAGGUGCACAG 750 Rh [777-794] ORF 170 GAGGAGUUUCUCAUUGCU 500 AGCAAUGAGAAACUCCUC 751 Rh [501-518] ORF 171 UGUUCCCACUCCCAUCUU 501 AAGAUGGGAGUGGGAACA 752 Rh [859-876] 3′UTR 172 ACCGCAGCGAGGAGUUUC 502 GAAACUCCUCGCUGCGGU 753 Rh, Rb, Dg, Rt [493-510] ORF 173 ACCAGAAGUCAACCAGAC 503 GUCUGGUUGACUUCUGGU 754 Rh [338-355] ORF 174 GCAAUUCCGACCUCGUCA 504 UGACGAGGUCGGAAUUGC 755 Rh [298-315] ORF 175 CUGCAAACUGCAGAGUGG 505 CCACUCUGCAGUUUGCAG 756 Rh [668-685] ORF 176 GGAGCCAGGGCUGUGCAC 506 GUGCACAGCCCUGGCUCC 757 Rh [767-784] ORF 177 CCUUCUGCAAUUCCGACC 507 GGUCGGAAUUGCAGAAGG 758 Rh [292-309] ORF 178 CUUGCACAUCACUACCUG 508 CAGGUAGUGAUGUGCAAG 759 [539-556] ORF 179 GGAAAACUGCAGGAUGGA 509 UCCAUCCUGCAGUUUUCC 760 [519-536] ORF 180 AAUGCACAGUGUUUCCCU 510 AGGGAAACACUGUGCAUU 761 Rh [637-654] ORF 181 CCCUGGAACAGCCUGAGC 511 GCUCAGGCUGUUCCAGGG 762 [570-587] ORF 182 GGAUGCCGCUGACAUCCG 512 CGGAUGUCAGCGGCAUCC 763 Rh [419-436] ORF 183 GGAUACUUCCACAGGUCC 513 GGACCUGUGGAAGUAUCC 764 Rh [471-488] ORF 184 CACUCAUUGCUUGUGGAC 514 GUCCACAAGCAAUGAGUG 765 Rh, Rb [686-703] ORF 185 GACACCAGAAGUCAACCA 515 UGGUUGACUUCUGGUGUC 766 Rh [335-352] ORF 186 CUACACUGUUGGCUGUGA 516 UCACAGCCAACAGUGUAG 767 Rh [617-634] ORF 187 ACCACCUUAUACCAGCGU 517 ACGCUGGUAUAAGGUGGU 768 Rh, Rt, Ms [354-371] ORF 188 AGAGUGGCACUCAUUGCU 518 AGCAAUGAGUGCCACUCU 769 Rh [679-696] ORF 189 GCAAACUGCAGAGUGGCA 519 UGCCACUCUGCAGUUUGC 770 Rh [670-687] ORF 190 GCCGCUGACAUCCGGUUC 520 GAACCGGAUGUCAGCGGC 771 Rh [423-440] ORF 191 UGUUUCCCUGUUUAUCCA 521 UGGAUAAACAGGGAAACA 772 Rh [646-663] ORF 192 AAGUCAACCAGACCACCU 522 AGGUGGUCUGGUUGACUU 773 Rh [343-360] ORF 193 CCACAACCGCAGCGAGGA 523 UCCUCGCUGCGGUUGUGG 774 Rh [488-505] ORF 194 GCCUGAGCUUAGCUCAGC 524 GCUGAGCUAAGCUCAGGC 775 [580-597] ORF 195 GUCAUCAGGGCCAAGUUC 525 GAACUUGGCCCUGAUGAC 776 Rh, Dg [312-329] ORF 196 AACCAGACCACCUUAUAC 526 GUAUAAGGUGGUCUGGUU 777 Rh [348-365] ORF 197 CUCCCUGGAACAGCCUGA 527 UCAGGCUGUUCCAGGGAG 778 [568-585] ORF 198 CCAAGGCUCUGAAAAGGG 528 CCCUUUUCAGAGCCUUGG 779 Rh [716-733] ORF 199 CUCAUUGCUGGAAAACUG 529 CAGUUUUCCAGCAAUGAG 780 Rh [510-527] ORF 200 GUGUCCACCCUGUUCCCA 530 UGGGAACAGGGUGGACAC 781 [849-866] 3′UTR 201 CCUGUUCCCACUCCCAUC 531 GAUGGGAGUGGGAACAGG 782 Rh [857-874] 3′UTR 202 CACCUUGCCUGCCUGCCU 532 AGGCAGGCAGGCAAGGUG 783 Rh [747-764] ORF 203 UCACCAAGACCUACACUG 533 CAGUGUAGGUCUUGGUGA 784 Rh [607-624] ORF 204 GAAUGCACAGUGUUUCCC 534 GGGAAACACUGUGCAUUC 785 Rh [636-653] ORF 205 AUGGACUCUUGCACAUCA 535 UGAUGUGCAAGAGUCCAU 786 [532-549] ORF 206 UGUGAGGAAUGCACAGUG 536 CACUGUGCAUUCCUCACA 787 Rh [630-647] ORF 207 GAGCCAGGGCUGUGCACC 537 GGUGCACAGCCCUGGCUC 788 Rh [768-785] ORF 208 UGCGGUCCCAGAUAGCCU 538 AGGCUAUCUGGGACCGCA 789 [796-813] ORF 209 CUGUUCCCACUCCCAUCU 539 AGAUGGGAGUGGGAACAG 790 Rh [858-875] 3′UTR 210 UGGCUUCUGGCAUCCUGU 540 ACAGGAUGCCAGAAGCCA 791 [211-228] ORF 211 CGGAUACUUCCACAGGUC 541 GACCUGUGGAAGUAUCCG 792 Rh [470-487] ORF 212 CACAGUGUCCACCCUGUU 542 AACAGGGUGGACACUGUG 793 [845-862] 3′UTR 213 GGAAUGCACAGUGUUUCC 543 GGAAACACUGUGCAUUCC 794 Rh [635-652] ORF 214 CCAGGGCUGUGCACCUGG 544 CCAGGUGCACAGCCCUGG 795 Rh [771-788] ORF 215 CCCUGCGGUCCCAGAUAG 545 CUAUCUGGGACCGCAGGG 796 [793-810] ORF 216 GCCUGCACCUGUGUCCCA 546 UGGGACACAGGUGCAGGC 797 Rb [258-275] ORF 217 CAGAGUGGCACUCAUUGC 547 GCAAUGAGUGCCACUCUG 798 Rh [678-695] ORF 218 UGCACAUCACUACCUGCA 548 UGCAGGUAGUGAUGUGCA 799 [541-558] ORF 219 GAAGUCAACCAGACCACC 549 GGUGGUCUGGUUGACUUC 800 Rh [342-359] ORF 220 UCCCUGCGGUCCCAGAUA 550 UAUCUGGGACCGCAGGGA 801 [792-809] ORF 221 AGUGGCACUCAUUGCUUG 551 CAAGCAAUGAGUGCCACU 802 Rh [681-698] ORF 222 GUGGCACUCAUUGCUUGU 552 ACAAGCAAUGAGUGCCAC 803 Rh [682-699] ORF 223 CUGAAUCCUGCCCGGAGU 553 ACUCCGGGCAGGAUUCAG 804 [812-829] ORF + 3′UTR 224 CCUGCACCUGUGUCCCAC 554 GUGGGACACAGGUGCAGG 805 Rb [259-276] ORF 225 GCCUGCCUCGGGAGCCAG 555 CUGGCUCCCGAGGCAGGC 806 Rh [757-774] ORF 226 GGGAUGCCGCUGACAUCC 556 GGAUGUCAGCGGCAUCCC 807 Rh [418-435] ORF 227 GCACCUGGCAGUCCCUGC 557 GCAGGGACUGCCAGGUGC 808 Rh, Dg [781-798] ORF 228 UCCUGUUGUUGCUGUGGC 558 GCCACAGCAACAACAGGA 809 Rh [223-240] ORF 229 UGCGGAUACUUCCACAGG 559 CCUGUGGAAGUAUCCGCA 810 Rh [468-485] ORF 230 GACCAAGAUGUAUAAAGG 560 CCUUUAUACAUCUUGGUC 811 Rh [386-403] ORF 231 ACUGUUGGCUGUGAGGAA 561 UUCCUCACAGCCAACAGU 812 Rh [621-638] ORF 232 CAUUGCUGGAAAACUGCA 562 UGCAGUUUUCCAGCAAUG 813 Rh [512-529] ORF 233 UGAAAAGGGCUUCCAGUC 563 GACUGGAAGCCCUUUUCA 814 Rh [725-742] ORF 234 CGUCAUCAGGGCCAAGUU 564 AACUUGGCCCUGAUGACG 815 Rh, Rb, Dg [311-328] ORF 235 ACAACCGCAGCGAGGAGU 565 ACUCCUCGCUGCGGUUGU 816 Rh [490-507] ORF 236 UGUCCACCCUGUUCCCAC 566 GUGGGAACAGGGUGGACA 817 Rh [850-867] 3′UTR 237 CCUGGCAGUCCCUGCGGU 567 ACCGCAGGGACUGCCAGG 818 [784-801] ORF 238 UGAAGCCUGCACAGUGUC 568 GACACUGUGCAGGCUUCA 819 [836-853] 3′UTR 239 UCCCAGAUAGCCUGAAUC 569 GAUUCAGGCUAUCUGGGA 820 [801-818] ORF + 3′UTR 240 AGCCUGAGCUUAGCUCAG 570 CUGAGCUAAGCUCAGGCU 821 [579-596] ORF 241 CACUACCUGCAGUUUUGU 571 ACAAAACUGCAGGUAGUG 822 [548-565] ORF 242 CUGCACAGUGUCCACCCU 572 AGGGUGGACACUGUGCAG 823 [842-859] 3′UTR 243 CUCGGGAGCCAGGGCUGU 573 ACAGCCCUGGCUCCCGAG 824 Rh [763-780] ORF 244 AGCCAGGGCUGUGCACCU 574 AGGUGCACAGCCCUGGCU 825 Rh [769-786] ORF 245 GCCAUGGAGAGUGUCUGC 575 GCAGACACUCUCCAUGGC 826 Rh [453-470] ORF 246 AGGGCUGUGCACCUGGCA 576 UGCCAGGUGCACAGCCCU 827 Rh [773-790] ORF 247 GAGCUUAGCUCAGCGCCG 577 CGGCGCUGAGCUAAGCUC 828 Rh [584-601] ORF 248 AGGCUCUGAAAAGGGCUU 578 AAGCCCUUUUCAGAGCCU 829 Rh [719-736] ORF 249 ACAUCACUACCUGCAGUU 579 AACUGCAGGUAGUGAUGU 830 [544-561] ORF 250 AACCGCAGCGAGGAGUUU 580 AAACUCCUCGCUGCGGUU 831 Rh, Rb, Dg, Rt [492-509] ORF 251 CAGCUCCUCCAAGGCUCU 581 AGAGCCUUGGAGGAGCUG 832 Rh [708-725] ORF

TABLE A6 18-mer Cross-Species siTIMP1 SEQ SEQ ID ID human-73858576 No. Sense (5′>3′) NO. Antisense (5′>3′) NO. Other Sp ORF: 193-816 1 ACCUGGCAGUCCCUGCGG 833 CCGCAGGGACUGCCAGGU 839 Rh, Rb, Dg [783-800] ORF 2 CAACCGCAGCGAGGAGUU 834 AACUCCUCGCUGCGGUUG 840 Rh, Rb, Dg, Rt [491-508] ORF 3 AUGCACAGUGUUUCCCUG 835 CAGGGAAACACUGUGCAU 841 Rh, Rt, Ms [638-655] ORF 4 GACCACCUUAUACCAGCG 836 CGCUGGUAUAAGGUGGUC 842 Rh, Rt, Ms [353-370] ORF 5 UUAUGAGAUCAAGAUGAC 837 GUCAUCUUGAUCUCAUAA 843 Rh, Dg, Rt [371-388] ORF 6 UAUACCAGCGUUAUGAGA 838 UCUCAUAACGCUGGUAUA 844 Rh, Rt [361-378] ORF

TABLE A7 Preferred 18 + A-mer siTIMP1 SEQ SEQ ID ID human-73858576 siTIMP1_pNo. Sense (5′>3′) NO. Antisense (5′>3′) NO. length ORF: 193-816 siTIMP1_p1 GCGUUAUGAGAUCAAGAUA 845 UAUCUUGAUCUCAUAACGC 926 18 + 1 [368-385] ORF siTIMP1_p3 CAGACCACCUUAUACCAGA 846 UCUGGUAUAAGGUGGUCUG 927 18 + 1 [351-368] ORF siTIMP1_p4 GCACAGUGUUUCCCUGUUA 847 UAACAGGGAAACACUGUGC 928 18 + 1 [640-657] ORF siTIMP1_p5 CAGCGAGGAGUUUCUCAUA 848 UAUGAGAAACUCCUCGCUG 929 18 + 1 [497-514] ORF siTIMP1_p7 AUACCAGCGUUAUGAGAUA 849 UAUCUCAUAACGCUGGUAU 930 18 + 1 [362-379] ORF siTIMP1_p8 UGCACAGUGUUUCCCUGUA 850 UACAGGGAAACACUGUGCA 931 18 + 1 [639-656] ORF siTIMP1_p9 CACCUUAUACCAGCGUUAA 851 UUAACGCUGGUAUAAGGUG 932 18 + 1 [356-373] ORF siTIMP1_p10 ACCUUAUACCAGCGUUAUA 852 UAUAACGCUGGUAUAAGGU 933 18 + 1 [357-374] ORF siTIMP1_p11 CUUAUACCAGCGUUAUGAA 853 UUCAUAACGCUGGUAUAAG 934 18 + 1 [359-376] ORF siTIMP1_p12 CCGCAGCGAGGAGUUUCUA 854 UAGAAACUCCUCGCUGCGG 935 18 + 1 [494-511] ORF siTIMP1_p13 ACCGCAGCGAGGAGUUUCA 855 UGAAACUCCUCGCUGCGGU 936 18 + 1 [493-510] ORF siTIMP1_p15 ACCACCUUAUACCAGCGUA 856 UACGCUGGUAUAAGGUGGU 937 18 + 1 [354-371] ORF siTIMP1_p18 AACCGCAGCGAGGAGUUUA 857 UAAACUCCUCGCUGCGGUU 938 18 + 1 [492-509] ORF siTIMP1_p22 UAUACCAGCGUUAUGAGAA 858 UUCUCAUAACGCUGGUAUA 939 18 + 1 [361-378] ORF siTIMP1_p25 AGAUCAAGAUGACCAAGAA 859 UUCUUGGUCAUCUUGAUCU 940 18 + 1 [376-393] ORF siTIMP1_p26 CCUGCAAACUGCAGAGUGA 860 UCACUCUGCAGUUUGCAGG 941 18 + 1 [667-684] ORF siTIMP1_p28 CCCUGCAAACUGCAGAGUA 861 UACUCUGCAGUUUGCAGGG 942 18 + 1 [666-683] ORF siTIMP1_p30 GAUCAAGAUGACCAAGAUA 862 UAUCUUGGUCAUCUUGAUC 943 18 + 1 [377-394] ORF siTIMP1_p32 GUCAUCAGGGCCAAGUUCA 863 UGAACUUGGCCCUGAUGAC 944 18 + 1 [312-329] ORF siTIMP1_p34 CCUGCACCUGUGUCCCACA 864 UGUGGGACACAGGUGCAGG 945 18 + 1 [259-276] ORF siTIMP1_p35 GGGCUUCACCAAGACCUAA 865 UUAGGUCUUGGUGAAGCCC 946 18 + 1 [602-619] ORF siTIMP1_p36 CGUCAUCAGGGCCAAGUUA 866 UAACUUGGCCCUGAUGACG 947 18 + 1 [311-328] ORF siTIMP1_p37 CACUCAUUGCUUGUGGACA 867 UGUCCACAAGCAAUGAGUG 948 18 + 1 [686-703] ORF siTIMP1_p39 CAGUGUUUCCCUGUUUAUA 868 UAUAAACAGGGAAACACUG 949 18 + 1 [643-660] ORF siTIMP1_p40 ACAGUGUUUCCCUGUUUAA 869 UUAAACAGGGAAACACUGU 950 18 + 1 [642-659] ORF siTIMP1_p41 AGUGUUUCCCUGUUUAUCA 870 UGAUAAACAGGGAAACACU 951 18 + 1 [644-661] ORF siTIMP1_p44 CAUCUUUCUUCCGGACAAA 871 UUUGUCCGGAAGAAAGAUG 952 18 + 1 [871-888] 3′UTR siTIMP1_p46 CCAGAUAGCCUGAAUCCUA 872 UAGGAUUCAGGCUAUCUGG 953 18 + 1 [803-820] ORF + 3′UTR siTIMP1_p47 GGUCCCAGAUAGCCUGAAA 873 UUUCAGGCUAUCUGGGACC 954 18 + 1 [799-816] ORF siTIMP1_p48 GGAGAGUGUCUGCGGAUAA 874 UUAUCCGCAGACACUCUCC 955 18 + 1 [458-475] ORF siTIMP1_p50 CCGCCAUGGAGAGUGUCUA 875 UAGACACUCUCCAUGGCGG 956 18 + 1 [458-475] ORF siTIMP1_p51 GAGUGUCUGCGGAUACUUA 876 UAAGUAUCCGCAGACACUC 957 18 + 1 [458-475] ORF siTIMP1_p52 GAGUGGCACUCAUUGCUUA 877 UAAGCAAUGAGUGCCACUC 958 18 + 1 [680-697] ORF siTIMP1_p53 GAGUGGAAGCUGAAGCCUA 878 UAGGCUUCAGCUUCCACUC 959 18 + 1 [826-843] 3′UTR siTIMP1_p54 CCCUGUUCCCACUCCCAUA 879 UAUGGGAGUGGGAACAGGG 960 18 + 1 [856-873] 3′UTR siTIMP1_p55 GCGGAUACUUCCACAGGUA 880 UACCUGUGGAAGUAUCCGC 961 18 + 1 [469-486] ORF siTIMP1_p56 GAGAGUGUCUGCGGAUACA 881 UGUAUCCGCAGACACUCUC 962 18 + 1 [459-476] ORF siTIMP1_p57 GGAACAGCCUGAGCUUAGA 882 UCUAAGCUCAGGCUGUUCC 963 18 + 1 [574-591] ORF siTIMP1_p58 CAACCAGACCACCUUAUAA 883 UUAUAAGGUGGUCUGGUUG 964 18 + 1 [347-364] ORF siTIMP1_p59 GAGGAAUGCACAGUGUUUA 884 UAAACACUGUGCAUUCCUC 965 18 + 1 [633-650] ORF siTIMP1_p61 CCAAGAUGUAUAAAGGGUA 885 UACCCUUUAUACAUCUUGG 966 18 + 1 [388-405] ORF siTIMP1_p62 CACCAGAAGUCAACCAGAA 886 UUCUGGUUGACUUCUGGUG 967 18 + 1 [337-354] ORF siTIMP1_p63 CAGAAGUCAACCAGACCAA 887 UUGGUCUGGUUGACUUCUG 968 18 + 1 [340-357] ORF siTIMP1_p64 CCCACUCCCAUCUUUCUUA 888 UAAGAAAGAUGGGAGUGGG 969 18 + 1 [863-880] 3′UTR siTIMP1_p65 GCGAGGAGUUUCUCAUUGA 889 UCAAUGAGAAACUCCUCGC 970 18 + 1 [499-516] ORF siTIMP1_p66 CUGCAGAGUGGCACUCAUA 890 UAUGAGUGCCACUCUGCAG 971 18 + 1 [675-692] ORF siTIMP1_p67 GAAGCUGAAGCCUGCACAA 891 UUGUGCAGGCUUCAGCUUC 972 18 + 1 [831-848] 3′UTR siTIMP1_p68 CCUGGAACAGCCUGAGCUA 892 UAGCUCAGGCUGUUCCAGG 973 18 + 1 [571-588] ORF siTIMP1_p69 GCAUCCUGUUGUUGCUGUA 893 UACAGCAACAACAGGAUGC 974 18 + 1 [220-237] ORF siTIMP1_p70 GUCCCAGAUAGCCUGAAUA 894 UAUUCAGGCUAUCUGGGAC 975 18 + 1 [800-817] ORF + 3′UTR siTIMP1_p72 GGCUGUGAGGAAUGCACAA 895 UUGUGCAUUCCUCACAGCC 976 18 + 1 [627-644] ORF siTIMP1_p74 GGCCUUCUGCAAUUCCGAA 896 UUCGGAAUUGCAGAAGGCC 977 18 + 1 [290-307] ORF siTIMP1_p75 GCAGAGUGGCACUCAUUGA 897 UCAAUGAGUGCCACUCUGC 978 18 + 1 [677-694] ORF siTIMP1_p76 CAGAUAGCCUGAAUCCUGA 898 UCAGGAUUCAGGCUAUCUG 979 18 + 1 [804-821] ORF + 3′UTR siTIMP1_p80 CCGGAGUGGAAGCUGAAGA 899 UCUUCAGCUUCCACUCCGG 980 18 + 1 [823-840] 3′UTR siTIMP1_p81 GGCUGUGCACCUGGCAGUA 900 UACUGCCAGGUGCACAGCC 981 18 + 1 [775-792] ORF siTIMP1_p82 GUCAACCAGACCACCUUAA 901 UUAAGGUGGUCUGGUUGAC 982 18 + 1 [345-362] ORF siTIMP1_p83 CCAUGGAGAGUGUCUGCGA 902 UCGCAGACACUCUCCAUGG 983 18 + 1 [454-471] ORF siTIMP1_p84 CUGGCAUCCUGUUGUUGCA 903 UGCAACAACAGGAUGCCAG 984 18 + 1 [217-234] ORF siTIMP1_p86 ACUGCAGAGUGGCACUCAA 904 UUGAGUGCCACUCUGCAGU 985 18 + 1 [674-691] ORF siTIMP1_p87 CGGAGUGGAAGCUGAAGCA 905 UGCUUCAGCUUCCACUCCG 986 18 + 1 [824-841] 3′UTR siTIMP1_p88 CCAGACCACCUUAUACCAA 906 UUGGUAUAAGGUGGUCUGG 987 18 + 1 [350-367] ORF siTIMP1_p90 GCUGGAAAACUGCAGGAUA 907 UAUCCUGCAGUUUUCCAGC 988 18 + 1 [516-533] ORF siTIMP1_p92 CCUGAAUCCUGCCCGGAGA 908 UCUCCGGGCAGGAUUCAGG 989 18 + 1 [811-828] ORF + 3′UTR siTIMP1_p93 CUGAAGCCUGCACAGUGUA 909 UACACUGUGCAGGCUUCAG 990 18 + 1 [835-852] 3′UTR siTIMP1_p94 CUGGAAAACUGCAGGAUGA 910 UCAUCCUGCAGUUUUCCAG 991 18 + 1 [517-534] ORF siTIMP1_p95 UCUCAUUGCUGGAAAACUA 911 UAGUUUUCCAGCAAUGAGA 992 18 + 1 [509-526] ORF siTIMP1_p97 AGACCUACACUGUUGGCUA 912 UAGCCAACAGUGUAGGUCU 993 18 + 1 [613-630] ORF siTIMP1_p100 GGGACACCAGAAGUCAACA 913 UGUUGACUUCUGGUGUCCC 994 18 + 1 [333-350] ORF siTIMP1_p101 GGCUCCCUGGAACAGCCUA 914 UAGGCUGUUCCAGGGAGCC 995 18 + 1 [566-583] ORF siTIMP1_p102 GUUCCCACUCCCAUCUUUA 915 UAAAGAUGGGAGUGGGAAC 996 18 + 1 [860-877] 3′UTR siTIMP1_p103 GGCUUCUGGCAUCCUGUUA 916 UAACAGGAUGCCAGAAGCC 997 18 + 1 [212-229] ORF siTIMP1_p104 CUUCUGGCAUCCUGUUGUA 917 UACAACAGGAUGCCAGAAG 998 18 + 1 [214-231] ORF siTIMP1_p105 AGAGUGUCUGCGGAUACUA 918 UAGUAUCCGCAGACACUCU 999 18 + 1 [460-477] ORF siTIMP1_p106 CACCAAGACCUACACUGUA 919 UACAGUGUAGGUCUUGGUG 1000 18 + 1 [608-625] ORF siTIMP1_p109 GGGAGCCAGGGCUGUGCAA 920 UUGCACAGCCCUGGCUCCC 1001 18 + 1 [766-783] ORF siTIMP1_p110 UGCAGAGUGGCACUCAUUA 921 UAAUGAGUGCCACUCUGCA 1002 18 + 1 [676-693] ORF siTIMP1_p111 GUGAGGAAUGCACAGUGUA 922 UACACUGUGCAUUCCUCAC 1003 18 + 1 [631-648] ORF siTIMP1_p112 AGCGAGGAGUUUCUCAUUA 923 UAAUGAGAAACUCCUCGCU 1004 18 + 1 [498-515] ORF siTIMP1_p113 GGGCUGUGCACCUGGCAGA 924 UCUGCCAGGUGCACAGCCC 1005 18 + 1 [774-791] ORF siTIMP1_p114 UGUUGUUGCUGUGGCUGAA 925 UUCAGCCACAGCAACAACA 1006 18 + 1 [226-243] ORF

TABLE A8 18 + 1-mer siTIMP1 with lowest predicted Off Target (OT) effect SEQ SEQ ID ID No. in Table Cross species Ranking Sense (5′ > 3′) NO. Antisense (5′ > 3′) NO. A7 H/Rt 2 GCGUUAUGAGAUCAAGAUA 845 UAUCUUGAUCUCAUAACGC 926 siTIMP1_p1 H/Rt 3 GCACAGUGUUUCCCUGUUA 847 UAACAGGGAAACACUGUGC 928 siTIMP1_p4 H/Rt 3 CAGCGAGGAGUUUCUCAUA 848 UAUGAGAAACUCCUCGCUG 929 siTIMP1_p5 H/Rt 2 AUACCAGCGUUAUGAGAUA 849 UAUCUCAUAACGCUGGUAU 930 siTIMP1_p7 H/Rt 4 UGCACAGUGUUUCCCUGUA 850 UACAGGGAAACACUGUGCA 931 siTIMP1_p8 H/Rt 1 CACCUUAUACCAGCGUUAA 851 UUAACGCUGGUAUAAGGUG 932 siTIMP1_p9 H/Rt 1 ACCUUAUACCAGCGUUAUA 852 UAUAACGCUGGUAUAAGGU 933 siTIMP1_p10 H/Rt 1 CUUAUACCAGCGUUAUGAA 853 UUCAUAACGCUGGUAUAAG 934 siTIMP1_p11 H/Rt 2 CCGCAGCGAGGAGUUUCUA 854 UAGAAACUCCUCGCUGCGG 935 siTIMP1_p12 H/Rt 3 ACCGCAGCGAGGAGUUUCA 855 UGAAACUCCUCGCUGCGGU 936 siTIMP1_p13 H/Rt 2 ACCACCUUAUACCAGCGUA 856 UACGCUGGUAUAAGGUGGU 937 siTIMP1_p15 H/Rt 2 AACCGCAGCGAGGAGUUUA 857 UAAACUCCUCGCUGCGGUU 938 siTIMP1_p18 H/Rt 2 UAUACCAGCGUUAUGAGAA 858 UUCUCAUAACGCUGGUAUA 939 siTIMP1_p22 Other (w/o Rt) 4 CCUGCAAACUGCAGAGUGA 860 UCACUCUGCAGUUUGCAGG 941 siTIMP1_p26 Other (w/o Rt) 4 CGUCAUCAGGGCCAAGUUA 866 UAACUUGGCCCUGAUGACG 947 siTIMP1_p36 H/Rt (Rt with 1 CACUCAUUGCUUGUGGACA 867 UGUCCACAAGCAAUGAGUG 948 siTIMP1_p37 1MM) Other (w/o Rt) 3 CAGUGUUUCCCUGUUUAUA 868 UAUAAACAGGGAAACACUG 949 siTIMP1_p39 Other (w/o Rt) 3 ACAGUGUUUCCCUGUUUAA 869 UUAAACAGGGAAACACUGU 950 siTIMP1_p40 Other (w/o Rt) 2 AGUGUUUCCCUGUUUAUCA 870 UGAUAAACAGGGAAACACU 951 siTIMP1_p41 H +/− Rh 2 CAUCUUUCUUCCGGACAAA 871 UUUGUCCGGAAGAAAGAUG 952 siTIMP1_p44 H +/− Rh 3 GGUCCCAGAUAGCCUGAAA 873 UUUCAGGCUAUCUGGGACC 954 siTIMP1_p47 H +/− Rh 2 GGAGAGUGUCUGCGGAUAA 874 UUAUCCGCAGACACUCUCC 955 siTIMP1_p48 H +/− Rh 3 CCGCCAUGGAGAGUGUCUA 875 UAGACACUCUCCAUGGCGG 956 siTIMP1_p50 H +/− Rh 3 GAGUGUCUGCGGAUACUUA 876 UAAGUAUCCGCAGACACUC 957 siTIMP1_p51 H +/− Rh 3 GAGUGGCACUCAUUGCUUA 877 UAAGCAAUGAGUGCCACUC 958 siTIMP1_p52 H +/− Rh 2 GCGGAUACUUCCACAGGUA 880 UACCUGUGGAAGUAUCCGC 961 siTIMP1_p55 H +/− Rh 2 GAGAGUGUCUGCGGAUACA 881 UGUAUCCGCAGACACUCUC 962 siTIMP1_p56 H +/− Rh 3 CAACCAGACCACCUUAUAA 883 UUAUAAGGUGGUCUGGUUG 964 siTIMP1_p58 H +/− Rh 3 CCAAGAUGUAUAAAGGGUA 885 UACCCUUUAUACAUCUUGG 966 siTIMP1_p61 H +/− Rh 4 CCCACUCCCAUCUUUCUUA 888 UAAGAAAGAUGGGAGUGGG 969 siTIMP1_p64 H +/− Rh 3 CUGCAGAGUGGCACUCAUA 890 UAUGAGUGCCACUCUGCAG 971 siTIMP1_p66 H +/− Rh 4 CCUGGAACAGCCUGAGCUA 892 UAGCUCAGGCUGUUCCAGG 973 siTIMP1_p68 H +/− Rh 3 GUCCCAGAUAGCCUGAAUA 894 UAUUCAGGCUAUCUGGGAC 975 siTIMP1_p70 H +/− Rh 4 GCAGAGUGGCACUCAUUGA 897 UCAAUGAGUGCCACUCUGC 978 siTIMP1_p75 H +/− Rh 3 CCAUGGAGAGUGUCUGCGA 903 UCGCAGACACUCUCCAUGG 983 siTIMP1_p83 H +/− Rh 4 ACUGCAGAGUGGCACUCAA 904 UUGAGUGCCACUCUGCAGU 985 siTIMP1_p86 H +/− Rh 2 CCAGACCACCUUAUACCAA 906 UUGGUAUAAGGUGGUCUGG 987 siTIMP1_p88 H +/− Rh 4 CCUGAAUCCUGCCCGGAGA 908 UCUCCGGGCAGGAUUCAGG 989 siTIMP1_p92 H +/− Rh 3 CUGAAGCCUGCACAGUGUA 909 UACACUGUGCAGGCUUCAG 990 siTIMP1_p93 H +/− Rh 4 UCUCAUUGCUGGAAAACUA 911 UAGUUUUCCAGCAAUGAGA 992 siTIMP1_p95 H +/− Rh 2 AGACCUACACUGUUGGCUA 912 UAGCCAACAGUGUAGGUCU 993 siTIMP1_p97 H +/− Rh 4 GUUCCCACUCCCAUCUUUA 915 UAAAGAUGGGAGUGGGAAC 996 siTIMP1_p102 H +/− Rh 4 CUUCUGGCAUCCUGUUGUA 917 UACAACAGGAUGCCAGAAG 998 siTIMP1_p104 H +/− Rh 2 AGAGUGUCUGCGGAUACUA 918 UAGUAUCCGCAGACACUCU 999 siTIMP1_p105 H +/− Rh 3 CACCAAGACCUACACUGUA 919 UACAGUGUAGGUCUUGGUG 1000 siTIMP1_p106 H +/− Rh 2 UGCAGAGUGGCACUCAUUA 921 UAAUGAGUGCCACUCUGCA 1002 siTIMP1_p110 H +/− Rh 4 AGCGAGGAGUUUCUCAUUA 923 UAAUGAGAAACUCCUCGCU 1004 siTIMP1_p112

TIMP2—TIMP Metallopeptidase Inhibitor 2

TABLE B1 siTIMP2 19-mers SEQ SEQ ID ID human-73858577 Sense (5′ > 3′) NO: Antisense (5′ > 3′) NO: Other Sp ORF: 303-965 GGAAGAACUUUCUCGGUAA 1007 UUACCGAGAAAGUUCUUCC 1622 Rh [2332-2350] 3′UTR GGUUCUCCAGUUCAAAUUA 1008 UAAUUUGAACUGGAGAACC 1623 [3062-3080] 3′UTR CUGUGUUUAUGCUGGAAUA 1009 UAUUCCAGCAUAAACACAG 1624 [3495-3513] 3′UTR CCUGUAUGGUGAUAUCAUA 1010 UAUGAUAUCACCAUACAGG 1625 [2789-2807] 3′UTR GGCACAUUAUGUAAACAUA 1011 UAUGUUUACAUAAUGUGCC 1626 Rh [2412-2430] 3′UTR GGUGAAUUCUCAGAUGAUA 1012 UAUCAUCUGAGAAUUCACC 1627 [2165-2183] 3′UTR CCAUGUGAUUUCAGUAUAU 1013 AUAUACUGAAAUCACAUGG 1628 Rh [2718-2736] 3′UTR CUCUGAGCCUUGUAGAAAU 1014 AUUUCUACAAGGCUCAGAG 1629 Rh [1606-1624] 3′UTR GGCUGCGAGUGCAAGAUCA 1015 UGAUCUUGCACUCGCAGCC 1630 Ck, Rb, Rt [752-770] ORF AGAGGAAGCCGCUCAAAUA 1016 UAUUUGAGCGGCUUCCUCU 1631 [3214-3232] 3′UTR CUUUGGUUCUCCAGUUCAA 1017 UUGAACUGGAGAACCAAAG 1632 [3058-3076] 3′UTR CAGUAUGAGAUCAAGCAGA 1018 UCUGCUUGAUCUCAUACUG 1633 Rh, Rb, Cw, Dg, Ms [509-527] ORF CUUGCAAAAUGCUUCCAAA 1019 UUUGGAAGCAUUUUGCAAG 1634 [2471-2489] 3′UTR CUUGGUAGGUAUUAGACUU 1020 AAGUCUAAUACCUACCAAG 1635 [2906-2924] 3′UTR CCCUCUGAGCCUUGUAGAA 1021 UUCUACAAGGCUCAGAGGG 1636 Rh [1604-1622] 3′UTR GGUAGGUAUUAGACUUGCA 1022 UGCAAGUCUAAUACCUACC 1637 [2909-2927] 3′UTR GGGUCACAGAGAAGAACAU 1023 AUGUUCUUCUCUGUGACCC 1638 Rh [831-849] ORF GAACCUGAGUUGCAGAUAU 1024 AUAUCUGCAACUCAGGUUC 1639 Rh [2187-2205] 3′UTR GGAUUGAGUUGCACAGCUU 1025 AAGCUGUGCAACUCAAUCC 1640 [1853-1871] 3′UTR GGUGAUAUCAUAUGUAACA 1026 UGUUACAUAUGAUAUCACC 1641 Rh [2796-2814] 3′UTR CCUGCAAGCAACUCAAAAU 1027 AUUUUGAGUUGCUUGCAGG 1642 [3343-3361] 3′UTR GGAUAUAGAGUUUAUCUAC 1028 GUAGAUAAACUCUAUAUCC 1643 [553-571] ORF GAUGCUUUGUAUCAUUCUU 1029 AAGAAUGAUACAAAGCAUC 1644 [3589-3607] 3′UTR GCAAGCAACUCAAAAUAUU 1030 AAUAUUUUGAGUUGCUUGC 1645 [3346-3364] 3′UTR CGUCUUUGGUUCUCCAGUU 1031 AACUGGAGAACCAAAGACG 1646 [3055-3073] 3′UTR CCUUUAUAUUUGAUCCACA 1032 UGUGGAUCAAAUAUAAAGG 1647 [3127-3145] 3′UTR GUGCUGAGCAGAAAACAAA 1033 UUUGUUUUCUGCUCAGCAC 1648 [3164-3182] 3′UTR CCAACUUCUGCUUGUAUUU 1034 AAAUACAAGCAGAAGUUGG 1649 Rh [2207-2225] 3′UTR CCUAUUAAUCCUCAGAAUU 1035 AAUUCUGAGGAUUAAUAGG 1650 Rh [1572-1590] 3′UTR CGGUAAUGAUAAGGAGAAU 1036 AUUCUCCUUAUCAUUACCG 1651 [2345-2363] 3′UTR CGCUCAAAUACCUUCACAA 1037 UUGUGAAGGUAUUUGAGCG 1652 [3223-3241] 3′UTR GGGCAGACUGGGAGGGUAU 1038 AUACCCUCCCAGUCUGCCC 1653 Rh [2619-2637] 3′UTR UGCUGAGCAGAAAACAAAA 1039 UUUUGUUUUCUGCUCAGCA 1654 [3165-3183] 3′UTR AGCGGUCAGUGAGAAGGAA 1040 UUCCUUCUCACUGACCGCU 1655 [445-463] ORF GGUAUUAGACUUGCACUUU 1041 AAAGUGCAAGUCUAAUACC 1656 [2913-2931] 3′UTR GCUGGAAUAUGAAGUCUGA 1042 UCAGACUUCAUAUUCCAGC 1657 Ms [3505-3523] 3′UTR CCUGUGUUGUAAAGAUAAA 1043 UUUAUCUUUACAACACAGG 1658 Rh [2380-2398] 3′UTR GGUAAGAUGUCAUAAUGGA 1044 UCCAUUAUGACAUCUUACC 1659 Rh [2694-2712] 3′UTR GUGGUUUCCUGAAGCCAGU 1045 ACUGGCUUCAGGAAACCAC 1660 [2295-2313] 3′UTR GGGUCCAAAUUAAUAUGAU 1046 AUCAUAUUAAUUUGGACCC 1661 [1077-1095] 3′UTR GGAACACACAAGAGUUGUU 1047 AACAACUCUUGUGUGUUCC 1662 [3539-3557] 3′UTR AGAUUACCUAGCUAAGAAA 1048 UUUCUUAGCUAGGUAAUCU 1663 [2238-2256] 3′UTR CUGGGAACACACAAGAGUU 1049 AACUCUUGUGUGUUCCCAG 1664 [3536-3554] 3′UTR UCCCAUGGGUCCAAAUUAA 1050 UUAAUUUGGACCCAUGGGA 1665 [1071-1089] 3′UTR GUUCUCCAGUUCAAAUUAU 1051 AUAAUUUGAACUGGAGAAC 1666 [3063-3081] 3′UTR CCAUGGGUCCAAAUUAAUA 1052 UAUUAAUUUGGACCCAUGG 1667 [1073-1091] 3′UTR UGGGCGUGGUCUUGCAAAA 1053 UUUUGCAAGACCACGCCCA 1668 [2461-2479] 3′UTR CGUGCUGAGCAGAAAACAA 1054 UUGUUUUCUGCUCAGCACG 1669 [3163-3181] 3′UTR CGGUCAGUGAGAAGGAAGU 1055 ACUUCCUUCUCACUGACCG 1670 [447-465] ORF CGAUAUACAGGCACAUUAU 1056 AUAAUGUGCCUGUAUAUCG 1671 [2403-2421] 3′UTR GCAUUUUGCAGAAACUUUU 1057 AAAAGUUUCUGCAAAAUGC 1672 Rh [1334-1352] 3′UTR GGACCAGUCCAUGUGAUUU 1058 AAAUCACAUGGACUGGUCC 1673 Rh [2710-2728] 3′UTR GCUCAAAUACCUUCACAAU 1059 AUUGUGAAGGUAUUUGAGC 1674 [3224-3242] 3′UTR CACCUUAGCCUGUUCUAUU 1060 AAUAGAACAGGCUAAGGUG 1675 Rh [2492-2510] 3′UTR GGAUCUCCCAGCUGGGUUA 1061 UAACCCAGCUGGGAGAUCC 1676 [1296-1314] 3′UTR GUAUUAGACUUGCACUUUU 1062 AAAAGUGCAAGUCUAAUAC 1677 [2914-2932] 3′UTR AGAGGAUCCAGUAUGAGAU 1063 AUCUCAUACUGGAUCCUCU 1678 Rh, Rb [501-519] ORF GAACCUAUGUGUUCCCUCA 1064 UGAGGGAACACAUAGGUUC 1679 [2274-2292] 3′UTR CUGAGUUGCAGAUAUACCA 1065 UGGUAUAUCUGCAACUCAG 1680 Rh [2191-2209] 3′UTR CUCAAAUACCUUCACAAUA 1066 UAUUGUGAAGGUAUUUGAG 1681 [3225-3243] 3′UTR UCCUAUUAAUCCUCAGAAU 1067 AUUCUGAGGAUUAAUAGGA 1682 Rh [1571-1589] 3′UTR CCAGUUCAAAUUAUUGCAA 1068 UUGCAAUAAUUUGAACUGG 1683 [3068-3086] 3′UTR UGUUUAUGCUGGAAUAUGA 1069 UCAUAUUCCAGCAUAAACA 1684 [3498-3516] 3′UTR GCACAGAUCUUGAUGACUU 1070 AAGUCAUCAAGAUCUGUGC 1685 Rh [2591-2609] 3′UTR AACCUGAGUUGCAGAUAUA 1071 UAUAUCUGCAACUCAGGUU 1686 Rh [2188-2206] 3 ′UTR CUGCAAGCAACUCAAAAUA 1072 UAUUUUGAGUUGCUUGCAG 1687 [3344-3362] 3′UTR GGCUUUGGUGACACACUCA 1073 UGAGUGUGUCACCAAAGCC 1688 [2086-2104] 3′UTR GUUGCAAGACUGUGUAGCA 1074 UGCUACACAGUCUUGCAAC 1689 Rh [1360-1378] 3′UTR GACAUUUAUGGCAACCCUA 1075 UAGGGUUGCCAUAAAUGUC 1690 [479-497] ORF GUAUGAGAUCAAGCAGAUA 1076 UAUCUGCUUGAUCUCAUAC 1691 Rh, Rb, Cw, Dg, Rt, Ms [511-529] ORF GACUUGCUGCCGUAAUUUA 1077 UAAAUUACGGCAGCAAGUC 1692 [3428-3446] 3′UTR GAAAGAAGGAAUAUCUCAU 1078 AUGAGAUAUUCCUUCUUUC 1693 [618-636] ORF GAGGAAAGAAGGAAUAUCU 1079 AGAUAUUCCUUCUUUCCUC 1694 Rt [615-633] ORF CGUGGACAAUAAACAGUAU 1080 AUACUGUUUAUUGUCCACG 1695 [3624-3642] 3 ′UTR GGUGAACCUGAGUUGCAGA 1081 UCUGCAACUCAGGUUCACC 1696 Rh [2184-2202] 3′UTR CCUGCAUCAAGAGAAGUGA 1082 UCACUUCUCUUGAUGCAGG 1697 Rt, Ms [876-894] ORF AGUCCAUGUGAUUUCAGUA 1083 UACUGAAAUCACAUGGACU 1698 Rh [2715-2733] 3′UTR AGUAAAGGAUCUUUGAGUA 1084 UACUCAAAGAUCCUUUACU 1699 [3087-3105] 3′UTR CCCAGAAGAAGAGCCUGAA 1085 UUCAGGCUCUUCUUCUGGG 1700 Rh, Cw, Ms, Pg [717-735] ORF GACAUCAGCUGUAAUCAUU 1086 AAUGAUUACAGCUGAUGUC 1701 [2864-2882] 3′UTR CCUCAAAGACUGACAGCCA 1087 UGGCUGUCAGUCUUUGAGG 1702 Rh [1980-1998] 3′UTR CUCGGUCCGUGGACAAUAA 1088 UUAUUGUCCACGGACCGAG 1703 [3617-3635] 3′UTR AGGGCAGCCUGGAACCAGU 1089 ACUGGUUCCAGGCUGCCCU 1704 [1525-1543] 3′UTR CCGUGGACAAUAAACAGUA 1090 UACUGUUUAUUGUCCACGG 1705 [3623-3641] 3′UTR GAAACGACAUUUAUGGCAA 1091 UUGCCAUAAAUGUCGUUUC 1706 [474-492] ORF CCUCAGAAUUCCAGUGGGA 1092 UCCCACUGGAAUUCUGAGG 1707 Rh [1581-1599] 3′UTR GUCACAGAGAAGAACAUCA 1093 UGAUGUUCUUCUCUGUGAC 1708 Rh [833-851] ORF CCAGUGGCUAGUUCUUGAA 1094 UUCAAGAACUAGCCACUGG 1709 [1539-1557] 3′UTR GGAACCAGUGGCUAGUUCU 1095 AGAACUAGCCACUGGUUCC 1710 [1535-1553] 3′UTR UCCAUGUGAUUUCAGUAUA 1096 UAUACUGAAAUCACAUGGA 1711 Rh [2717-2735] 3′UTR AGGUAUUAGACUUGCACUU 1097 AAGUGCAAGUCUAAUACCU 1712 [2912-2930] 3′UTR CAUUUGACCCAGAGUGGAA 1098 UUCCACUCUGGGUCAAAUG 1713 [2961-2979] 3′UTR GCACCUGGAUUGAGUUGCA 1099 UGCAACUCAAUCCAGGUGC 1714 [1847-1865] 3′UTR AGUUGUUGAAAGUUGACAA 1100 UUGUCAACUUUCAACAACU 1715 [3551-3569] 3′UTR GUGGCCAACUGCAAAAAAA 1101 UUUUUUUGCAGUUGGCCAC 1716 [984-1002] 3′UTR CUCAAAGACUGACAGCCAU 1102 AUGGCUGUCAGUCUUUGAG 1717 Rh [1981-1999] 3′UTR GCCUCAGCUGAGUCUUUUU 1103 AAAAAGACUCAGCUGAGGC 1718 Rh [1658-1676] 3′UTR UGCUUUGUAUCAUUCUUGA 1104 UCAAGAAUGAUACAAAGCA 1719 [3591-3609] 3′UTR GUUUAAGAAGGCUCUCCAU 1105 AUGGAGAGCCUUCUUAAAC 1720 [3265-3283] 3′UTR CCAGCUAAGCAUAGUAAGA 1106 UCUUACUAUGCUUAGCUGG 1721 [2030-2048] 3′UTR GUUGGUAAGAUGUCAUAAU 1107 AUUAUGACAUCUUACCAAC 1722 Rh [2691-2709] 3′UTR CACCUGUGUUGUAAAGAUA 1108 UAUCUUUACAACACAGGUG 1723 Rh [2378-2396] 3′UTR CAGCCUCAGCUGAGUCUUU 1109 AAAGACUCAGCUGAGGCUG 1724 Rh [1656-1674] 3′UTR AUGAGAUCAAGCAGAUAAA 1110 UUUAUCUGCUUGAUCUCAU 1725 Rh, Cw, Dg, Rt, Ms [513-531] ORF GUUGCACAGCUUUGCUUUA 1111 UAAAGCAAAGCUGUGCAAC 1726 [1860-1878] 3′UTR GUGGCUAGUUCUUGAAGGA 1112 UCCUUCAAGAACUAGCCAC 1727 [1542-1560] 3′UTR GAUUGAGUUGCACAGCUUU 1113 AAAGCUGUGCAACUCAAUC 1728 [1854-1872] 3′UTR GGAUCUUUGAGUAGGUUCG 1114 CGAACCUACUCAAAGAUCC 1729 [3093-3111] 3′UTR CGCUGGACGUUGGAGGAAA 1115 UUUCCUCCAACGUCCAGCG 1730 Rt, Ms [603-621] ORF CACACACGUUGGUCUUUUA 1116 UAAAAGACCAACGUGUGUG 1731 [3142-3160] 3′UTR CUCAGUGUGGUUUCCUGAA 1117 UUCAGGAAACCACACUGAG 1732 [2289-2307] 3′UTR AUGUUAUGUUCUAAGCACA 1118 UGUGCUUAGAACAUAACAU 1733 [3303-3321] 3′UTR GCCACCUUAGCCUGUUCUA 1119 UAGAACAGGCUAAGGUGGC 1734 Rh [2490-2508] 3′UTR AAGAGUUGUUGAAAGUUGA 1120 UCAACUUUCAACAACUCUU 1735 [3548-3566] 3′UTR CCUGAGAAGGAUAUAGAGU 1121 ACUCUAUAUCCUUCUCAGG 1736 [545-563] ORF ACCAGUGGCUAGUUCUUGA 1122 UCAAGAACUAGCCACUGGU 1737 [1538-1556] 3′UTR CAUCCUGCAAGCAACUCAA 1123 UUGAGUUGCUUGCAGGAUG 1738 [3340-3358] 3′UTR GUAAUGAUAAGGAGAAUCU 1124 AGAUUCUCCUUAUCAUUAC 1739 [2347-2365] 3′UTR GGAAUAUCUCAUUGCAGGA 1125 UCCUGCAAUGAGAUAUUCC 1740 [625-643] ORF GGGCGUGGUCUUGCAAAAU 1126 AUUUUGCAAGACCACGCCC 1741 [2462-2480] 3′UTR CAUCCUGAGGACAGAAAAA 1127 UUUUUCUGUCCUCAGGAUG 1742 Rh [1921-1939] 3′UTR UGGACUUGCUGCCGUAAUU 1128 AAUUACGGCAGCAAGUCCA 1743 [3426-3444] 3′UTR GUGACACACUCACUUCUUU 1129 AAAGAAGUGAGUGUGUCAC 1744 [2093-2111] 3 ′UTR CUGUUUUAAGAGACAUCUU 1130 AAGAUGUCUCUUAAAACAG 1745 Rh [2135-2153] 3′UTR GUUUAUGCUGGAAUAUGAA 1131 UUCAUAUUCCAGCAUAAAC 1746 [3499-3517] 3′UTR GUCCAUGUGAUUUCAGUAU 1132 AUACUGAAAUCACAUGGAC 1747 Rh [2716-2734] 3′UTR AGGAGUUUCUCGACAUCGA 1133 UCGAUGUCGAGAAACUCCU 1748 Ck, Dg [936-954] ORF GAAGAACUUUCUCGGUAAU 1134 AUUACCGAGAAAGUUCUUC 1749 Rh [2333-2351] 3′UTR GGGUCUGGAGGGAGACGUG 1135 CACGUCUCCCUCCAGACCC 1750 [1130-1148] 3′UTR GGAAGCCGCUCAAAUACCU 1136 AGGUAUUUGAGCGGCUUCC 1751 [3217-3235] 3′UTR GGUCCGUGGACAAUAAACA 1137 UGUUUAUUGUCCACGGACC 1752 [3620-3638] 3′UTR CCCUCCAACCCAUAUAACA 1138 UGUUAUAUGGGUUGGAGGG 1753 [2752-2770] 3′UTR CCCAUGGGUCCAAAUUAAU 1139 AUUAAUUUGGACCCAUGGG 1754 [1072-1090] 3′UTR CACACUCACUUCUUUCUCA 1140 UGAGAAAGAAGUGAGUGUG 1755 [2097-2115] 3′UTR GCAGAAAACAAAACAGGUU 1141 AACCUGUUUUGUUUUCUGC 1756 [3171-3189] 3′UTR CAUCAAUCCUAUUAAUCCU 1142 AGGAUUAAUAGGAUUGAUG 1757 Rh [1565-1583] 3′UTR CACAAUAAAUAGUGGCAAU 1143 AUUGCCACUAUUUAUUGUG 1758 [3237-3255] 3′UTR GUUGGAGGAAAGAAGGAAU 1144 AUUCCUUCUUUCCUCCAAC 1759 Rt [611-629] ORF GGCCUUUAUAUUUGAUCCA 1145 UGGAUCAAAUAUAAAGGCC 1760 [3125-3143] 3′UTR UGUUCAAAGGGCCUGAGAA 1146 UUCUCAGGCCCUUUGAACA 1761 [534-552] ORF ACUGGGUCACAGAGAAGAA 1147 UUCUUCUCUGUGACCCAGU 1762 Rh, Rt, Ms [828-846] ORF GGUAAUGAUAAGGAGAAUC 1148 GAUUCUCCUUAUCAUUACC 1763 [2346-2364] 3′UTR CACACAAGAGUUGUUGAAA 1149 UUUCAACAACUCUUGUGUG 1764 [3543-3561] 3′UTR CUCUGGAUGGACUGGGUCA 1150 UGACCCAGUCCAUCCAGAG 1765 Rh, Rb, Cw, Dg, Rt, Ms, [818-836] ORF Pg GGAACUAGGGAACCUAUGU 1151 ACAUAGGUUCCCUAGUUCC 1766 Rh [2265-2283] 3′UTR CUCGGUAAUGAUAAGGAGA 1152 UCUCCUUAUCAUUACCGAG 1767 [2343-2361] 3′UTR AGGUGAAUUCUCAGAUGAU 1153 AUCAUCUGAGAAUUCACCU 1768 [2164-2182] 3′UTR UCGGUAAUGAUAAGGAGAA 1154 UUCUCCUUAUCAUUACCGA 1769 [2344-2362] 3′UTR GCCAAAGCGGUCAGUGAGA 1155 UCUCACUGACCGCUUUGGC 1770 [440-458] ORF GAACCAGUGGCUAGUUCUU 1156 AAGAACUAGCCACUGGUUC 1771 [1536-1554] 3′UTR CCCUUCUCCUUUUAGACAU 1157 AUGUCUAAAAGGAGAAGGG 1772 [1105-1123] 3′UTR CCACCUUAGCCUGUUCUAU 1158 AUAGAACAGGCUAAGGUGG 1773 Rh [2491-2509] 3′UTR CCCUGAGCACCACCCAGAA 1159 UUCUGGGUGGUGCUCAGGG 1774 Rh, Pg [705-723] ORF UGCUGUACAGUGACCUAAA 1160 UUUAGGUCACUGUACAGCA 1775 [2672-2690] 3′UTR CCUUAGCCUGUUCUAUUCA 1161 UGAAUAGAACAGGCUAAGG 1776 Rh [2494-2512] 3′UTR GAACUUUCUCGGUAAUGAU 1162 AUCAUUACCGAGAAAGUUC 1777 [2336-2354] 3′UTR CCUAGGAAGGGAAGGAUUU 1163 AAAUCCUUCCCUUCCUAGG 1778 Rh [2056-2074] 3′UTR UCAGUGAGAAGGAAGUGGA 1164 UCCACUUCCUUCUCACUGA 1779 [450-468] ORF AUAUGAAGUCUGAGACCUU 1165 AAGGUCUCAGACUUCAUAU 1780 [3511-3529] 3′UTR GGACUCUGGAAACGACAUU 1166 AAUGUCGUUUCCAGAGUCC 1781 Rh [466-484] ORF CCUCUGAGCCUUGUAGAAA 1167 UUUCUACAAGGCUCAGAGG 1782 Rh [1605-1623] 3′UTR AGUUUAAGAAGGCUCUCCA 1168 UGGAGAGCCUUCUUAAACU 1783 [3264-3282] 3′UTR AGGGCAGACUGGGAGGGUA 1169 UACCCUCCCAGUCUGCCCU 1784 Rh [2618-2636] 3′UTR GUAGAAAUGGGAGCGAGAA 1170 UUCUCGCUCCCAUUUCUAC 1785 [1617-1635] 3′UTR GGACUUGCUGCCGUAAUUU 1171 AAAUUACGGCAGCAAGUCC 1786 [3427-3445] 3′UTR AGAACUUUCUCGGUAAUGA 1172 UCAUUACCGAGAAAGUUCU 1787 [2335-2353] 3′UTR GUAUCAUUCUUGAGCAAUC 1173 GAUUGCUCAAGAAUGAUAC 1788 [3597-3615] 3′UTR CAGCUAAGCAUAGUAAGAA 1174 UUCUUACUAUGCUUAGCUG 1789 [2031-2049] 3′UTR GGCCUGUUUUAAGAGACAU 1175 AUGUCUCUUAAAACAGGCC 1790 Rh [2132-2150] 3′UTR GACUGGGUCACAGAGAAGA 1176 UCUUCUCUGUGACCCAGUC 1791 Rh, Rt, Ms [827-845] ORF CUCUGAUGCUUUGUAUCAU 1177 AUGAUACAAAGCAUCAGAG 1792 [3585-3603] 3′UTR GUAACAUUUACUCCUGUUU 1178 AAACAGGAGUAAAUGUUAC 1793 Rh [2809-2827] 3′UTR UGAGUUGCAGAUAUACCAA 1179 UUGGUAUAUCUGCAACUCA 1794 Rh [2192-2210] 3′UTR AUCCCAUGGGUCCAAAUUA 1180 UAAUUUGGACCCAUGGGAU 1795 [1070-1088] 3′UTR CUCUGGAAACGACAUUUAU 1181 AUAAAUGUCGUUUCCAGAG 1796 Rh [469-487] ORF GAUCCAGUAUGAGAUCAAG 1182 CUUGAUCUCAUACUGGAUC 1797 Rh, Rb [505-523] ORF AGGUGUGGCCUUUAUAUUU 1183 AAAUAUAAAGGCCACACCU 1798 [3119-3137] 3′UTR CCCUGUUCGCUUCCUGUAU 1184 AUACAGGAAGCGAACAGGG 1799 [2777-2795] 3′UTR GGGAGACGUGGGUCCAAGG 1185 CCUUGGACCCACGUCUCCC 1800 [1139-1157] 3′UTR CAUGGGUCCAAAUUAAUAU 1186 AUAUUAAUUUGGACCCAUG 1801 [1074-1092] 3′UTR UGGGUCACAGAGAAGAACA 1187 UGUUCUUCUCUGUGACCCA 1802 Rh [830-848] ORF CCUCAAGGUCCCUUCCCUA 1188 UAGGGAAGGGACCUUGAGG 1803 [1786-1804] 3′UTR UGGUUCUCCAGUUCAAAUU 1189 AAUUUGAACUGGAGAACCA 1804 [3061-3079] 3′UTR GGACCUGGUCAGCACAGAU 1190 AUCUGUGCUGACCAGGUCC 1805 Rh [2580-2598] 3′UTR GGAGGGAGACGUGGGUCCA 1191 UGGACCCACGUCUCCCUCC 1806 [1136-1154] 3′UTR UCUGAUGCUUUGUAUCAUU 1192 AAUGAUACAAAGCAUCAGA 1807 [3586-3604] 3′UTR GGGACAUGGCCCUUGUUUU 1193 AAAACAAGGGCCAUGUCCC 1808 [1407-1425] 3′UTR GCCUGGGCGUGGUCUUGCA 1194 UGCAAGACCACGCCCAGGC 1809 [2458-2476] 3′UTR GGCGUUUUGCAAUGCAGAU 1195 AUCUGCAUUGCAAAACGCC 1810 Cw, Rt, Ms [409-427] ORF GAGUAGGUUCGGUCUGAAA 1196 UUUCAGACCGAACCUACUC 1811 [3101-3119] 3′UTR AGUUCUUCGCCUGCAUCAA 1197 UUGAUGCAGGCGAAGAACU 1812 Rh, Rb, Cw, Dg, Ms [867-885] ORF ACAAAGAUUACCUAGCUAA 1198 UUAGCUAGGUAAUCUUUGU 1813 [2234-2252] 3′UTR GAGGGAGACGUGGGUCCAA 1199 UUGGACCCACGUCUCCCUC 1814 [1137-1155] 3′UTR CUGUUUCUGCUGAUUGUUU 1200 AAACAAUCAGCAGAAACAG 1815 [2822-2840] 3′UTR CUGACGAUAUACAGGCACA 1201 UGUGCCUGUAUAUCGUCAG 1816 [2399-2417] 3′UTR UGUUGAAAGUUGACAAGCA 1202 UGCUUGUCAACUUUCAACA 1817 [3554-3572] 3′UTR GCCUAGGAAGGGAAGGAUU 1203 AAUCCUUCCCUUCCUAGGC 1818 Rh [2055-2073] 3′UTR GGUGACACACUCACUUCUU 1204 AAGAAGUGAGUGUGUCACC 1819 [2092-2110] 3′UTR GAGCCUUGUAGAAAUGGGA 1205 UCCCAUUUCUACAAGGCUC 1820 Rh [1610-1628] 3′UTR CAGAAAACAAAACAGGUUA 1206 UAACCUGUUUUGUUUUCUG 1821 [3172-3190] 3′UTR CGCAUGUCUCUGAUGCUUU 1207 AAAGCAUCAGAGACAUGCG 1822 [3578-3596] 3′UTR GACAAAGAUUACCUAGCUA 1208 UAGCUAGGUAAUCUUUGUC 1823 [2233-2251] 3′UTR CUGUAUGGUGAUAUCAUAU 1209 AUAUGAUAUCACCAUACAG 1824 [2790-2808] 3′UTR GACUCUGGAAACGACAUUU 1210 AAAUGUCGUUUCCAGAGUC 1825 Rh [467-485] ORF GGUUCGGUCUGAAAGGUGU 1211 ACACCUUUCAGACCGAACC 1826 [3106-3124] 3′UTR AGAUGAUAGGUGAACCUGA 1212 UCAGGUUCACCUAUCAUCU 1827 [2176-2194] 3′UTR GACACUAUGGCCUGUUUUA 1213 UAAAACAGGCCAUAGUGUC 1828 [2124-2142] 3′UTR CUGCAAAAAAAGCCUCCAA 1214 UUGGAGGCUUUUUUUGCAG 1829 [992-1010] 3′UTR CUGUUCUAUUCAGCGGCAA 1215 UUGCCGCUGAAUAGAACAG 1830 [2501-2519] 3′UTR GUGGGUCCAAGGUCCUCAU 1216 AUGAGGACCUUGGACCCAC 1831 [1146-1164] 3′UTR GCCUGAGAAGGAUAUAGAG 1217 CUCUAUAUCCUUCUCAGGC 1832 [544-562] ORF GAAACUUCCUAGGGAACUA 1218 UAGUUCCCUAGGAAGUUUC 1833 [2253-2271] 3′UTR CGCCAGCUAAGCAUAGUAA 1219 UUACUAUGCUUAGCUGGCG 1834 [2028-2046] 3′UTR GCCUCUGGAUGGACUGGGU 1220 ACCCAGUCCAUCCAGAGGC 1835 Rh, Rb, Cw, Dg, Rt, Ms [816-834] ORF ACGAUAUACAGGCACAUUA 1221 UAAUGUGCCUGUAUAUCGU 1836 [2402-2420] 3′UTR AGCACCACCCAGAAGAAGA 1222 UCUUCUUCUGGGUGGUGCU 1837 Rh, Pg [710-728] ORF CCUCCCUCAAAGACUGACA 1223 UGUCAGUCUUUGAGGGAGG 1838 Rh [1976-1994] 3′UTR GGAGCACUGUGUUUAUGCU 1224 AGCAUAAACACAGUGCUCC 1839 [3489-3507] 3′UTR ACUUGCUGCCGUAAUUUAA 1225 UUAAAUUACGGCAGCAAGU 1840 [3429-3447] 3′UTR GGUUUCCUGAAGCCAGUGA 1226 UCACUGGCUUCAGGAAACC 1841 [2297-2315] 3′UTR GGUCAGUGAGAAGGAAGUG 1227 CACUUCCUUCUCACUGACC 1842 [448-466] ORF GUGACGCCAGCUAAGCAUA 1228 UAUGCUUAGCUGGCGUCAC 1843 [2024-2042] 3′UTR AUGAUAAGGAGAAUCUCUU 1229 AAGAGAUUCUCCUUAUCAU 1844 [2350-2368] 3′UTR UAGUGUUCCCUCCCUCAAA 1230 UUUGAGGGAGGGAACACUA 1845 [1968-1986] 3′UTR GGAGACGUGGGUCCAAGGU 1231 ACCUUGGACCCACGUCUCC 1846 [1140-1158] 3′UTR CCUGUUCUAUUCAGCGGCA 1232 UGCCGCUGAAUAGAACAGG 1847 [2500-2518] 3′UTR UCCAGUAUGAGAUCAAGCA 1233 UGCUUGAUCUCAUACUGGA 1848 Rh, Rb [507-525] ORF CAAAAUGCUUCCAAAGCCA 1234 UGGCUUUGGAAGCAUUUUG 1849 Rh [2475-2493] 3′UTR CACACGCAAUGAAACCGAA 1235 UUCGGUUUCAUUGCGUGUG 1850 [2431-2449] 3′UTR CUCCAUUUGGCAUCGUUUA 1236 UAAACGAUGCCAAAUGGAG 1851 [3278-3296] 3′UTR AGCAGGAGUUUCUCGACAU 1237 AUGUCGAGAAACUCCUGCU 1852 Ck, Dg [933-951] ORF GUGUGGCCUUUAUAUUUGA 1238 UCAAAUAUAAAGGCCACAC 1853 [3121-3139] 3′UTR GGGACCUGGUCAGCACAGA 1239 UCUGUGCUGACCAGGUCCC 1854 Rh [2579-2597] 3′UTR CCUCAGUGUGGUUUCCUGA 1240 UCAGGAAACCACACUGAGG 1855 [2288-2306] 3′UTR GACCCAGAGUGGAACGCGU 1241 ACGCGUUCCACUCUGGGUC 1856 [2966-2984] 3′UTR CCACCUGUGUUGUAAAGAU 1242 AUCUUUACAACACAGGUGG 1857 Rh [2377-2395] 3′UTR ACCUGUGUUGUAAAGAUAA 1243 UUAUCUUUACAACACAGGU 1858 Rh [2379-2397] 3′UTR GUUUUGCAAUGCAGAUGUA 1244 UACAUCUGCAUUGCAAAAC 1859 [412-430] ORF AAAAAAGCCUCCAAGGGUU 1245 AACCCUUGGAGGCUUUUUU 1860 [997-1015] 3′UTR UAAGAAACUUCCUAGGGAA 1246 UUCCCUAGGAAGUUUCUUA 1861 [2250-2268] 3′UTR GCAUUUGACCCAGAGUGGA 1247 UCCACUCUGGGUCAAAUGC 1862 [2960-2978] 3′UTR CCCUCAAGGUCCCUUCCCU 1248 AGGGAAGGGACCUUGAGGG 1863 [1785-1803] 3′UTR AGGAUCCAGUAUGAGAUCA 1249 UGAUCUCAUACUGGAUCCU 1864 Rh, Rb [503-521] ORF AAGAUUACCUAGCUAAGAA 1250 UUCUUAGCUAGGUAAUCUU 1865 [2237-2255] 3′UTR CUAUGUGUUCCCUCAGUGU 1251 ACACUGAGGGAACACAUAG 1866 [2278-2296] 3′UTR GACAGAGGAAGCCGCUCAA 1252 UUGAGCGGCUUCCUCUGUC 1867 [3211-3229] 3′UTR UUAAGAAGGCUCUCCAUUU 1253 AAAUGGAGAGCCUUCUUAA 1868 [3267-3285] 3′UTR UAAGGAGAAUCUCUUGUUU 1254 AAACAAGAGAUUCUCCUUA 1869 [2354-2372] 3′UTR GUUUCCUGAAGCCAGUGAU 1255 AUCACUGGCUUCAGGAAAC 1870 [2298-2316] 3′UTR UGAGCACCACCCAGAAGAA 1256 UUCUUCUGGGUGGUGCUCA 1871 Rh, Pg [708-726] ORF CUAUUAAUCCUCAGAAUUC 1257 GAAUUCUGAGGAUUAAUAG 1872 Rh [1573-1591] 3′UTR CUGGGCGUGGUCUUGCAAA 1258 UUUGCAAGACCACGCCCAG 1873 [2460-2478] 3′UTR GGAGGAAAGAAGGAAUAUC 1259 GAUAUUCCUUCUUUCCUCC 1874 Rt [614-632] ORF CCAAGUUCUUCGCCUGCAU 1260 AUGCAGGCGAAGAACUUGG 1875 Rh, Rb, Cw, Dg, Ms [864-882] ORF GUUUCUGCUGAUUGUUUUU 1261 AAAAACAAUCAGCAGAAAC 1876 [2824-2842] 3′UTR GGUCCAAGGUCCUCAUCCC 1262 GGGAUGAGGACCUUGGACC 1877 [1149-1167] 3′UTR AGUUGGUAAGAUGUCAUAA 1263 UUAUGACAUCUUACCAACU 1878 Rh [2690-2708] 3′UTR GGAAUAUGAAGUCUGAGAC 1264 GUCUCAGACUUCAUAUUCC 1879 Ms [3508-3526] 3′UTR GAGUGGAACGCGUGGCCUA 1265 UAGGCCACGCGUUCCACUC 1880 [2972-2990] 3′UTR GGUUGUGGGUCUGGAGGGA 1266 UCCCUCCAGACCCACAACC 1881 Rh [1124-1142] 3′UTR GUUGAUUUUGUUUCCGUUU 1267 AAACGGAAACAAAAUCAAC 1882 [3454-3472] 3′UTR CACUGUGUUUAUGCUGGAA 1268 UUCCAGCAUAAACACAGUG 1883 [3493-3511] 3′UTR GAGCUGCGUUCCAGCCUCA 1269 UGAGGCUGGAACGCAGCUC 1884 [1645-1663] 3′UTR GGACUGGGUCACAGAGAAG 1270 CUUCUCUGUGACCCAGUCC 1885 Rh, Rt, Ms, Pg [826-844] ORF AGCUAAGCAUAGUAAGAAG 1271 CUUCUUACUAUGCUUAGCU 1886 [2032-2050] 3′UTR CACAAGAGUUGUUGAAAGU 1272 ACUUUCAACAACUCUUGUG 1887 [3545-3563] 3′UTR GGUCAGCACAGAUCUUGAU 1273 AUCAAGAUCUGUGCUGACC 1888 Rh [2586-2604] 3′UTR UUCUAAAGGUGAAUUCUCA 1274 UGAGAAUUCACCUUUAGAA 1889 [2158-2176] 3′UTR AGGGAACUAGGGAACCUAU 1275 AUAGGUUCCCUAGUUCCCU 1890 Rh [2263-2281] 3′UTR GGAAGUGGACUCUGGAAAC 1276 GUUUCCAGAGUCCACUUCC 1891 [460-478] ORF CCUCCCACCUGUGUUGUAA 1277 UUACAACACAGGUGGGAGG 1892 Rh [2373-2391] 3′UTR CGGACGAGUGCCUCUGGAU 1278 AUCCAGAGGCACUCGUCCG 1893 Rh, Rb, Cw [807-825] ORF CGUGGAAGCAUUUGACCCA 1279 UGGGUCAAAUGCUUCCACG 1894 Rh [2953-2971] 3′UTR GCACUGUGUUUAUGCUGGA 1280 UCCAGCAUAAACACAGUGC 1895 [3492-3510] 3′UTR AGUUGCAGAUAUACCAACU 1281 AGUUGGUAUAUCUGCAACU 1896 Rh [2194-2212] 3′UTR AAUGAUAAGGAGAAUCUCU 1282 AGAGAUUCUCCUUAUCAUU 1897 [2349-2367] 3′UTR CUUGCUGCCGUAAUUUAAA 1283 UUUAAAUUACGGCAGCAAG 1898 [3430-3448] 3′UTR GGAGAAUCUCUUGUUUCCU 1284 AGGAAACAAGAGAUUCUCC 1899 [2357-2375] 3′UTR CCUUGGUAGGUAUUAGACU 1285 AGUCUAAUACCUACCAAGG 1900 [2905-2923] 3′UTR GGACGUUGGAGGAAAGAAG 1286 CUUCUUUCCUCCAACGUCC 1901 Rt, Ms [607-625] ORF CGUUGGAGGAAAGAAGGAA 1287 UUCCUUCUUUCCUCCAACG 1902 Rt, Ms [610-628] ORF CUGACAUCCCUUCCUGGAA 1288 UUCCAGGAAGGGAUGUCAG 1903 Rh, Rt, Ms [1031-1049] 3′UTR UGACAUCCCUUCCUGGAAA 1289 UUUCCAGGAAGGGAUGUCA 1904 Rh, Rt, Ms [1032-1050] 3′UTR GAUAUACCAACUUCUGCUU 1290 AAGCAGAAGUUGGUAUAUC 1905 Rh [2201-2219] 3′UTR AGAUGGGCUGCGAGUGCAA 1291 UUGCACUCGCAGCCCAUCU 1906 Ck, Rb, Rt [747-765] ORF GGCUUAGUGUUCCCUCCCU 1292 AGGGAGGGAACACUAAGCC 1907 [1964-1982] 3′UTR GUAUGGUGAUAUCAUAUGU 1293 ACAUAUGAUAUCACCAUAC 1908 [2792-2810] 3′UTR ACCAACUUCUGCUUGUAUU 1294 AAUACAAGCAGAAGUUGGU 1909 Rh [2206-2224] 3′UTR CUCACUUCUUUCUCAGCCU 1295 AGGCUGAGAAAGAAGUGAG 1910 [2101-2119] 3′UTR CUCCCACCUGUGUUGUAAA 1296 UUUACAACACAGGUGGGAG 1911 Rh [2374-2392] 3′UTR GGGUCUCGCUGGACGUUGG 1297 CCAACGUCCAGCGAGACCC 1912 Rt, Ms [597-615] ORF GAGCCUCCCUCUGAGCCUU 1298 AAGGCUCAGAGGGAGGCUC 1913 Rh [1598-1616] 3′UTR GCAUGUCUCUGAUGCUUUG 1299 CAAAGCAUCAGAGACAUGC 1914 [3579-3597] 3′UTR GGCGUUUUCAUGCUGUACA 1300 UGUACAGCAUGAAAACGCC 1915 Rh [2662-2680] 3′UTR AUACCAACUUCUGCUUGUA 1301 UACAAGCAGAAGUUGGUAU 1916 Rh [2204-2222] 3′UTR GCAAUGCAGAUGUAGUGAU 1302 AUCACUACAUCUGCAUUGC 1917 [417-435] ORF ACUUCUGCUUGUAUUUCUU 1303 AAGAAAUACAAGCAGAAGU 1918 Rh [2210-2228] 3′UTR UCCAGUUCAAAUUAUUGCA 1304 UGCAAUAAUUUGAACUGGA 1919 [3067-3085] 3′UTR CCUGGUCAGCACAGAUCUU 1305 AAGAUCUGUGCUGACCAGG 1920 Rh [2583-2601] 3′UTR UGUUGAUUUUGUUUCCGUU 1306 AACGGAAACAAAAUCAACA 1921 [3453-3471] 3′UTR UGCAGAUAUACCAACUUCU 1307 AGAAGUUGGUAUAUCUGCA 1922 Rh [2197-2215] 3′UTR GCGGUCAGUGAGAAGGAAG 1308 CUUCCUUCUCACUGACCGC 1923 [446-464] ORF GGCGUGGUCUUGCAAAAUG 1309 CAUUUUGCAAGACCACGCC 1924 [2463-2481] 3′UTR GUCCAGCCUAGGAAGGGAA 1310 UUCCCUUCCUAGGCUGGAC 1925 Rh [2050-2068] 3′UTR ACUUUCUCGGUAAUGAUAA 1311 UUAUCAUUACCGAGAAAGU 1926 [2338-2356] 3′UTR CUUCUGCUUGUAUUUCUUA 1312 UAAGAAAUACAAGCAGAAG 1927 [2211-2229] 3′UTR CAGAGGAAGCCGCUCAAAU 1313 AUUUGAGCGGCUUCCUCUG 1928 [3213-3231] 3′UTR GAAGGAAGUGGACUCUGGA 1314 UCCAGAGUCCACUUCCUUC 1929 [457-475] ORF CAGUGAGAAGGAAGUGGAC 1315 GUCCACUUCCUUCUCACUG 1930 [451-469] ORF GACUUCCCUUUCUAGGGCA 1316 UGCCCUAGAAAGGGAAGUC 1931 Rh [2605-2623] 3′UTR CCUCCCUCUGAGCCUUGUA 1317 UACAAGGCUCAGAGGGAGG 1932 Rh [1601-1619] 3′UTR CAUGCUGUACAGUGACCUA 1318 UAGGUCACUGUACAGCAUG 1933 [2670-2688] 3′UTR GAGUGCCUCUGGAUGGACU 1319 AGUCCAUCCAGAGGCACUC 1934 Rh, Rb, Cw, Dg, Rt, Ms [812-830] ORF CUGGGAGGGUAUCCAGGAA 1320 UUCCUGGAUACCCUCCCAG 1935 Rh [2626-2644] 3′UTR AACCGUGCUGAGCAGAAAA 1321 UUUUCUGCUCAGCACGGUU 1936 [3160-3178] 3′UTR CAGUCCAUGUGAUUUCAGU 1322 ACUGAAAUCACAUGGACUG 1937 Rh [2714-2732] 3′UTR UAGACAUGGUUGUGGGUCU 1323 AGACCCACAACCAUGUCUA 1938 [1117-1135] 3′UTR GCGCAUGUCUCUGAUGCUU 1324 AAGCAUCAGAGACAUGCGC 1939 [3577-3595] 3′UTR AAGGUGAAUUCUCAGAUGA 1325 UCAUCUGAGAAUUCACCUU 1940 [2163-2181] 3′UTR AGAAGAACAUCAACGGGCA 1326 UGCCCGUUGAUGUUCUUCU 1941 Rh, Rb [840-858] ORF ACAUACACACGCAAUGAAA 1327 UUUCAUUGCGUGUGUAUGU 1942 Rh [2426-2444] 3′UTR CACAGAUCUUGAUGACUUC 1328 GAAGUCAUCAAGAUCUGUG 1943 Rh [2592-2610] 3′UTR AGCCGCUCAAAUACCUUCA 1329 UGAAGGUAUUUGAGCGGCU 1944 [3220-3238] 3′UTR CCAGUAUGAGAUCAAGCAG 1330 CUGCUUGAUCUCAUACUGG 1945 Rh, Rb, Cw, Dg, Ms [508-526] ORF GUGAGAAGGAAGUGGACUC 1331 GAGUCCACUUCCUUCUCAC 1946 [453-471] ORF ACCUUAGCCUGUUCUAUUC 1332 GAAUAGAACAGGCUAAGGU 1947 Rh [2493-2511] 3′UTR CCUGUUUCUGCUGAUUGUU 1333 AACAAUCAGCAGAAACAGG 1948 [2821-2839] 3′UTR GCCAUUGCUUCUUGCCUGU 1334 ACAGGCAAGAAGCAAUGGC 1949 [1817-1835] 3′UTR GCCUGGAAAUGUGCAUUUU 1335 AAAAUGCACAUUUCCAGGC 1950 Rh [1322-1340] 3′UTR GCACAGCUCUCUUCUCCUA 1336 UAGGAGAAGAGAGCUGUGC 1951 [3317-3335] 3′UTR CGACAUUUAUGGCAACCCU 1337 AGGGUUGCCAUAAAUGUCG 1952 [478-496] ORF CCUGUGCUGUGUUUUUUAU 1338 AUAAAAAACACAGCACAGG 1953 Rh [2883-2901] 3′UTR AGGAAGUGGACUCUGGAAA 1339 UUUCCAGAGUCCACUUCCU 1954 [459-477] ORF GCUAAGCAUAGUAAGAAGU 1340 ACUUCUUACUAUGCUUAGC 1955 [2033-2051] 3′UTR CCGUCUUUGGUUCUCCAGU 1341 ACUGGAGAACCAAAGACGG 1956 [3054-3072] 3′UTR UUUCCUGAAGCCAGUGAUA 1342 UAUCACUGGCUUCAGGAAA 1957 [2299-2317] 3′UTR AGACGUGGGUCCAAGGUCC 1343 GGACCUUGGACCCACGUCU 1958 [1142-1160] 3′UTR ACAUUUAUGGCAACCCUAU 1344 AUAGGGUUGCCAUAAAUGU 1959 [480-498] ORF GUGGACAAUAAACAGUAUU 1345 AAUACUGUUUAUUGUCCAC 1960 [3625-3643] 3′UTR GGGAACACACAAGAGUUGU 1346 ACAACUCUUGUGUGUUCCC 1961 [3538-3556] 3′UTR GCUCGGUCCGUGGACAAUA 1347 UAUUGUCCACGGACCGAGC 1962 [3616-3634] 3′UTR CCGUGCUGAGCAGAAAACA 1348 UGUUUUCUGCUCAGCACGG 1963 [3162-3180] 3′UTR CCGCUCAAAUACCUUCACA 1349 UGUGAAGGUAUUUGAGCGG 1964 [3222-3240] 3′UTR GUUCCCUCCCUCAAAGACU 1350 AGUCUUUGAGGGAGGGAAC 1965 [1972-1990] 3′UTR GGUCGUUGCAAGACUGUGU 1351 ACACAGUCUUGCAACGACC 1966 [1356-1374] 3′UTR GGUGCUGGGAACACACAAG 1352 CUUGUGUGUUCCCAGCACC 1967 [3532-3550] 3′UTR AGUAUAUACAACUCCACCA 1353 UGGUGGAGUUGUAUAUACU 1968 Rh [2730-2748] 3′UTR GGCAUCAGGCACCUGGAUU 1354 AAUCCAGGUGCCUGAUGCC 1969 [1839-1857] 3′UTR AGCAGAUAAAGAUGUUCAA 1355 UUGAACAUCUUUAUCUGCU 1970 Cw, Dg, Rt, Ms, Pg [522-540] ORF UGGAAUAUGAAGUCUGAGA 1356 UCUCAGACUUCAUAUUCCA 1971 Ms [3507-3525] 3′UTR CAGGCACCUGGAUUGAGUU 1357 AACUCAAUCCAGGUGCCUG 1972 Rh [1844-1862] 3′UTR AUAAGGAGAAUCUCUUGUU 1358 AACAAGAGAUUCUCCUUAU 1973 [2353-2371] 3′UTR GCCUGUUUUAAGAGACAUC 1359 GAUGUCUCUUAAAACAGGC 1974 Rh [2133-2151] 3′UTR CGCUUCCUGUAUGGUGAUA 1360 UAUCACCAUACAGGAAGCG 1975 [2784-2802] 3′UTR GCACCGUCACAGAUGCCAA 1361 UUGGCAUCUGUGACGGUGC 1976 [1262-1280] 3′UTR GUUCCAGCCUCAGCUGAGU 1362 ACUCAGCUGAGGCUGGAAC 1977 [1652-1670] 3′UTR GGAGGUAGGUGGCUUUGGU 1363 ACCAAAGCCACCUACCUCC 1978 Rh [2076-2094] 3′UTR GGAAACGACAUUUAUGGCA 1364 UGCCAUAAAUGUCGUUUCC 1979 [473-491] ORF GCAAGAUGCACAUCACCCU 1365 AGGGUGAUGUGCAUCUUGC 1980 Rh, Dg [660-678] ORF UGUAGAAAUGGGAGCGAGA 1366 UCUCGCUCCCAUUUCUACA 1981 Rh [1616-1634] 3′UTR GGCCUAUGCAGGUGGAUUC 1367 GAAUCCACCUGCAUAGGCC 1982 Rh [2985-3003] 3′UTR AAGAAGAGCCUGAACCACA 1368 UGUGGUUCAGGCUCUUCUU 1983 Rh, Rb, Cw, Ms, Pg [722-740] ORF GGGAGGGUAUCCAGGAAUC 1369 GAUUCCUGGAUACCCUCCC 1984 Rh [2628-2646] 3′UTR GUCAUAAUGGACCAGUCCA 1370 UGGACUGGUCCAUUAUGAC 1985 Rh [2702-2720] 3′UTR CCAAGGUCCUCAUCCCAUC 1371 GAUGGGAUGAGGACCUUGG 1986 [1152-1170] 3′UTR AGGUGGCUUUGGUGACACA 1372 UGUGUCACCAAAGCCACCU 1987 Rh [2082-2100] 3′UTR AGACUGUGUAGCAGGCCUA 1373 UAGGCCUGCUACACAGUCU 1988 Rh [1366-1384] 3′UTR GGCCUGGAAAUGUGCAUUU 1374 AAAUGCACAUUUCCAGGCC 1989 Rh [1321-1339] 3′UTR GGUUAGGAUAGGAAGAACU 1375 AGUUCUUCCUAUCCUAACC 1990 [2322-2340] 3′UTR GGCUAGUUCUUGAAGGAGC 1376 GCUCCUUCAAGAACUAGCC 1991 [1544-1562] 3′UTR AGCUCUGUUGAUUUUGUUU 1377 AAACAAAAUCAACAGAGCU 1992 [3448-3466] 3′UTR UGCAUUUUGCAGAAACUUU 1378 AAAGUUUCUGCAAAAUGCA 1993 Rh [1333-1351] 3′UTR GUCUGAAAGGUGUGGCCUU 1379 AAGGCCACACCUUUCAGAC 1994 [3112-3130] 3′UTR CAUCCAAGGGCAGCCUGGA 1380 UCCAGGCUGCCCUUGGAUG 1995 [1519-1537] 3′UTR UGUUUCUGCUGAUUGUUUU 1381 AAAACAAUCAGCAGAAACA 1996 [2823-2841] 3′UTR UGCAAGCAACUCAAAAUAU 1382 AUAUUUUGAGUUGCUUGCA 1997 [3345-3363] 3′UTR AACAUUUACUCCUGUUUCU 1383 AGAAACAGGAGUAAAUGUU 1998 Rh [2811-2829] 3′UTR GAAAGGUGUGGCCUUUAUA 1384 UAUAAAGGCCACACCUUUC 1999 [3116-3134] 3′UTR UCCUGUUUCUGCUGAUUGU 1385 ACAAUCAGCAGAAACAGGA 2000 [2820-2838] 3′UTR AUCCUAUUAAUCCUCAGAA 1386 UUCUGAGGAUUAAUAGGAU 2001 Rh [1570-1588] 3′UTR UCCUGAAGCCAGUGAUAUG 1387 CAUAUCACUGGCUUCAGGA 2002 [2301-2319] 3′UTR AGGGCCUGAGAAGGAUAUA 1388 UAUAUCCUUCUCAGGCCCU 2003 [541-559] ORF GUUGCAGAUAUACCAACUU 1389 AAGUUGGUAUAUCUGCAAC 2004 Rh [2195-2213] 3′UTR GGGCCUGAGAAGGAUAUAG 1390 CUAUAUCCUUCUCAGGCCC 2005 [542-560] ORF CGGGCGUUUUCAUGCUGUA 1391 UACAGCAUGAAAACGCCCG 2006 Rh [2660-2678] 3′UTR ACCAGUCCAUGUGAUUUCA 1392 UGAAAUCACAUGGACUGGU 2007 Rh [2712-2730] 3′UTR CGUGGGUCCAAGGUCCUCA 1393 UGAGGACCUUGGACCCACG 2008 [1145-1163] 3′UTR GCCUGGAACCAGUGGCUAG 1394 CUAGCCACUGGUUCCAGGC 2009 [1531-1549] 3′UTR CCUUUCAUCUUGAGAGGGA 1395 UCCCUCUCAAGAUGAAAGG 2010 Rh [1392-1410] 3′UTR CCAGUGGGAGCCUCCCUCU 1396 AGAGGGAGGCUCCCACUGG 2011 Rh [1591-1609] 3′UTR AAAUGUGCAUUUUGCAGAA 1397 UUCUGCAAAAUGCACAUUU 2012 Rh, Ms [1328-1346] 3′UTR UGGUCAGCACAGAUCUUGA 1398 UCAAGAUCUGUGCUGACCA 2013 Rh [2585-2603] 3′UTR CUAUGCAGGUGGAUUCCUU 1399 AAGGAAUCCACCUGCAUAG 2014 Rh [2988-3006] 3′UTR AGUAAGAAGUCCAGCCUAG 1400 CUAGGCUGGACUUCUUACU 2015 Rh [2042-2060] 3′UTR CUCAUCCCAUGGGUCCAAA 1401 UUUGGACCCAUGGGAUGAG 2016 [1067-1085] 3′UTR AGAGCCGGGUGGCAGCUGA 1402 UCAGCUGCCACCCGGCUCU 2017 [3194-3212] 3′UTR GCUGGGAACACACAAGAGU 1403 ACUCUUGUGUGUUCCCAGC 2018 [3535-3553] 3′UTR CCGGACGAGUGCCUCUGGA 1404 UCCAGAGGCACUCGUCCGG 2019 Rh, Rb, Cw [806-824] ORF CCCUCAGUGUGGUUUCCUG 1405 CAGGAAACCACACUGAGGG 2020 [2287-2305] 3′UTR AGUUGCACAGCUUUGCUUU 1406 AAAGCAAAGCUGUGCAACU 2021 [1859-1877] 3′UTR CCCAUAAGCAGGCCUCCAA 1407 UUGGAGGCCUGCUUAUGGG 2022 [958-976] ORF + 3′UTR CGGUGCUGGGAACACACAA 1408 UUGUGUGUUCCCAGCACCG 2023 [3531-3549] 3′UTR GGUUUGUUUUUGACAUCAG 1409 CUGAUGUCAAAAACAAACC 2024 Rh [2853-2871] 3′UTR GACGAUAUACAGGCACAUU 1410 AAUGUGCCUGUAUAUCGUC 2025 [2401-2419] 3′UTR CUUAGUGUUCCCUCCCUCA 1411 UGAGGGAGGGAACACUAAG 2026 [1966-1984] 3′UTR GACACACUCACUUCUUUCU 1412 AGAAAGAAGUGAGUGUGUC 2027 [2095-2113] 3′UTR GAAGCCGCUCAAAUACCUU 1413 AAGGUAUUUGAGCGGCUUC 2028 [3218-3236] 3′UTR GGUCCCUUUCAUCUUGAGA 1414 UCUCAAGAUGAAAGGGACC 2029 Rh [1388-1406] 3′UTR CCUGGAACCAGUGGCUAGU 1415 ACUAGCCACUGGUUCCAGG 2030 [1532-1550] 3′UTR UUCAGUAUAUACAACUCCA 1416 UGGAGUUGUAUAUACUGAA 2031 Rh [2727-2745] 3′UTR ACCUAUGUGUUCCCUCAGU 1417 ACUGAGGGAACACAUAGGU 2032 [2276-2294] 3′UTR CUCCUAUUUUCAUCCUGCA 1418 UGCAGGAUGAAAAUAGGAG 2033 [3330-3348] 3′UTR ACACACAAGAGUUGUUGAA 1419 UUCAACAACUCUUGUGUGU 2034 [3542-3560] 3′UTR UGUCUCUGAUGCUUUGUAU 1420 AUACAAAGCAUCAGAGACA 2035 [3582-3600] 3′UTR UAGAAAUGGGAGCGAGAAA 1421 UUUCUCGCUCCCAUUUCUA 2036 [1618-1636] 3′UTR GAAGCAUUUGACCCAGAGU 1422 ACUCUGGGUCAAAUGCUUC 2037 [2957-2975] 3′UTR GUUUUUGACAUCAGCUGUA 1423 UACAGCUGAUGUCAAAAAC 2038 [2858-2876] 3′UTR GGAGUUUCUCGACAUCGAG 1424 CUCGAUGUCGAGAAACUCC 2039 Ck, Dg [937-955] ORF GAUAAACUGACGAUAUACA 1425 UGUAUAUCGUCAGUUUAUC 2040 [2393-2411] 3′UTR GUGUUCCCUCCCUCAAAGA 1426 UCUUUGAGGGAGGGAACAC 2041 [1970-1988] 3′UTR UUUGUUUCCGUUUGGAUUU 1427 AAAUCCAAACGGAAACAAA 2042 [3460-3478] 3′UTR AGCUGAGUCUUUUUGGUCU 1428 AGACCAAAAAGACUCAGCU 2043 Rh [1663-1681] 3′UTR AACUUUCUCGGUAAUGAUA 1429 UAUCAUUACCGAGAAAGUU 2044 [2337-2355] 3′UTR CCGGGUGGCAGCUGACAGA 1430 UCUGUCAGCUGCCACCCGG 2045 [3198-3216] 3′UTR GAGUUGCACAGCUUUGCUU 1431 AAGCAAAGCUGUGCAACUC 2046 [1858-1876] 3′UTR CCGGGACCUGGUCAGCACA 1432 UGUGCUGACCAGGUCCCGG 2047 Rh [2577-2595] 3′UTR CAAAGUAAAGGAUCUUUGA 1433 UCAAAGAUCCUUUACUUUG 2048 [3084-3102] 3′UTR CAGCUCUCUUCUCCUAUUU 1434 AAAUAGGAGAAGAGAGCUG 2049 [3320-3338] 3′UTR GACAGAAAAAGCUGGGUCU 1435 AGACCCAGCUUUUUCUGUC 2050 Rh [1930-1948] 3′UTR UGCAUGUGACGCCAGCUAA 1436 UUAGCUGGCGUCACAUGCA 2051 [2019-2037] 3′UTR CCAGCCUCAGCUGAGUCUU 1437 AAGACUCAGCUGAGGCUGG 2052 Rh [1655-1673] 3′UTR GACCUAAAGUUGGUAAGAU 1438 AUCUUACCAACUUUAGGUC 2053 [2683-2701] 3′UTR GGUGUGGCCUUUAUAUUUG 1439 CAAAUAUAAAGGCCACACC 2054 [3120-3138] 3′UTR GUCCAAGGUCCUCAUCCCA 1440 UGGGAUGAGGACCUUGGAC 2055 [1150-1168] 3′UTR UAGUAAGAAGUCCAGCCUA 1441 UAGGCUGGACUUCUUACUA 2056 Rh [2041-2059] 3′UTR AAGCAUAGUAAGAAGUCCA 1442 UGGACUUCUUACUAUGCUU 2057 [2036-2054] 3′UTR AGGAUAGGAAGAACUUUCU 1443 AGAAAGUUCUUCCUAUCCU 2058 [2326-2344] 3′UTR AGGAGAAUCUCUUGUUUCC 1444 GGAAACAAGAGAUUCUCCU 2059 [2356-2374] 3′UTR CAAGAGUUGUUGAAAGUUG 1445 CAACUUUCAACAACUCUUG 2060 [3547-3565] 3′UTR CCCAUGAUCCCGUGCUACA 1446 UGUAGCACGGGAUCAUGGG 2061 Rh, Rb [779-797] ORF CAUCCCAUGGGUCCAAAUU 1447 AAUUUGGACCCAUGGGAUG 2062 [1069-1087] 3′UTR CUGAGCAGAAAACAAAACA 1448 UGUUUUGUUUUCUGCUCAG 2063 [3167-3185] 3′UTR AGCAGAAAACAAAACAGGU 1449 ACCUGUUUUGUUUUCUGCU 2064 [3170-3188] 3′UTR CUUGUUUCCUCCCACCUGU 1450 ACAGGUGGGAGGAAACAAG 2065 [2366-2384] 3′UTR GUGGACUCUGGAAACGACA 1451 UGUCGUUUCCAGAGUCCAC 2066 Rh [464-482] ORF UGAUAAGGAGAAUCUCUUG 1452 CAAGAGAUUCUCCUUAUCA 2067 Rh [2351-2369] 3′UTR UGAGUAGGUUCGGUCUGAA 1453 UUCAGACCGAACCUACUCA 2068 [3100-3118] 3′UTR CAUUUGGCAUCGUUUAAUU 1454 AAUUAAACGAUGCCAAAUG 2069 [3281-3299] 3′UTR GCUUCCUGUAUGGUGAUAU 1455 AUAUCACCAUACAGGAAGC 2070 [2785-2803] 3′UTR GAGGAUCCAGUAUGAGAUC 1456 GAUCUCAUACUGGAUCCUC 2071 Rh, Rb [502-520] ORF GCACAUCCUGAGGACAGAA 1457 UUCUGUCCUCAGGAUGUGC 2072 Rh [1918-1936] 3′UTR GCAUGAAUAAAACACUCAU 1458 AUGAGUGUUUUAUUCAUGC 2073 Rh [1053-1071] 3′UTR GCAACAGGCGUUUUGCAAU 1459 AUUGCAAAACGCCUGUUGC 2074 Cw, Rt, Ms [403-421] ORF GGGACGGCAAGAUGCACAU 1460 AUGUGCAUCUUGCCGUCCC 2075 [654-672] ORF CUGUAAUCAUUCCUGUGCU 1461 AGCACAGGAAUGAUUACAG 2076 Rh [2872-2890] 3′UTR GGUCUUUUAACCGUGCUGA 1462 UCAGCACGGUUAAAAGACC 2077 [3152-3170] 3′UTR ACAGCUCUCUUCUCCUAUU 1463 AAUAGGAGAAGAGAGCUGU 2078 [3319-3337] 3′UTR ACCCUUGGUAGGUAUUAGA 1464 UCUAAUACCUACCAAGGGU 2079 [2903-2921] 3′UTR GACUGGUCCAGCUCUGACA 1465 UGUCAGAGCUGGACCAGUC 2080 Rh [1018-1036] 3′UTR AUCCUGCAAGCAACUCAAA 1466 UUUGAGUUGCUUGCAGGAU 2081 [3341-3359] 3′UTR CCAUGAUCCCGUGCUACAU 1467 AUGUAGCACGGGAUCAUGG 2082 Rh, Rb [780-798] ORF UUGUAUCAUUCUUGAGCAA 1468 UUGCUCAAGAAUGAUACAA 2083 [3595-3613] 3′UTR GAGUCUUUUUGGUCUGCAC 1469 GUGCAGACCAAAAAGACUC 2084 [1667-1685] 3′UTR GUUCAAAGGGCCUGAGAAG 1470 CUUCUCAGGCCCUUUGAAC 2085 [535-553] ORF AGCCUCAGCUGAGUCUUUU 1471 AAAAGACUCAGCUGAGGCU 2086 Rh [1657-1675] 3′UTR GAUAAGGAGAAUCUCUUGU 1472 ACAAGAGAUUCUCCUUAUC 2087 [2352-2370] 3′UTR ACAUCACCCUCUGUGACUU 1473 AAGUCACAGAGGGUGAUGU 2088 Rh [669-687] ORF GCGUGGUCUUGCAAAAUGC 1474 GCAUUUUGCAAGACCACGC 2089 [2464-2482] 3′UTR GCCUUGGCACCGUCACAGA 1475 UCUGUGACGGUGCCAAGGC 2090 Rh [1256-1274] 3′UTR AGAAGAGCCUGAACCACAG 1476 CUGUGGUUCAGGCUCUUCU 2091 Rh, Rb, Cw, Ms, Pg [723-741] ORF UGGCCUGUUUUAAGAGACA 1477 UGUCUCUUAAAACAGGCCA 2092 Rh [2131-2149] 3′UTR GGGAAGGAUUUUGGAGGUA 1478 UACCUCCAAAAUCCUUCCC 2093 Rh [2064-2082] 3′UTR CCCUGUGGCCAACUGCAAA 1479 UUUGCAGUUGGCCACAGGG 2094 Rh [980-998] 3′UTR CUUUCUCGGUAAUGAUAAG 1480 CUUAUCAUUACCGAGAAAG 2095 [2339-2357] 3′UTR CACUCAUCCCAUGGGUCCA 1481 UGGACCCAUGGGAUGAGUG 2096 [1065-1083] 3′UTR GGUGGCAGCUGACAGAGGA 1482 UCCUCUGUCAGCUGCCACC 2097 [3201-3219] 3′UTR GUGAAUUCUCAGAUGAUAG 1483 CUAUCAUCUGAGAAUUCAC 2098 [2166-2184] 3′UTR UCCUGCAAGCAACUCAAAA 1484 UUUUGAGUUGCUUGCAGGA 2099 [3342-3360] 3′UTR CCUGUUUUAAGAGACAUCU 1485 AGAUGUCUCUUAAAACAGG 2100 Rh [2134-2152] 3′UTR GGGCAGCCUGGAACCAGUG 1486 CACUGGUUCCAGGCUGCCC 2101 [1526-1544] 3′UTR GCAUCAGGCACCUGGAUUG 1487 CAAUCCAGGUGCCUGAUGC 2102 [1840-1858] 3′UTR AGCCUGGAACCAGUGGCUA 1488 UAGCCACUGGUUCCAGGCU 2103 [1530-1548] 3′UTR UGCACAUCACCCUCUGUGA 1489 UCACAGAGGGUGAUGUGCA 2104 Rh [666-684] ORF AGAUAUACCAACUUCUGCU 1490 AGCAGAAGUUGGUAUAUCU 2105 Rh [2200-2218] 3′UTR CUAGCUAAGAAACUUCCUA 1491 UAGGAAGUUUCUUAGCUAG 2106 [2245-2263] 3′UTR CUCUCUUCUCCUAUUUUCA 1492 UGAAAAUAGGAGAAGAGAG 2107 [3323-3341] 3′UTR AUCCAAGGGCAGCCUGGAA 1493 UUCCAGGCUGCCCUUGGAU 2108 [1520-1538] 3′UTR AAAGGAUCUUUGAGUAGGU 1494 ACCUACUCAAAGAUCCUUU 2109 [3090-3108] 3′UTR CUGAGCACCACCCAGAAGA 1495 UCUUCUGGGUGGUGCUCAG 2110 Rh, Pg [707-725] ORF CCUGUUCUGGCAUCAGGCA 1496 UGCCUGAUGCCAGAACAGG 2111 [1831-1849] 3′UTR UGUGUUUAUGCUGGAAUAU 1497 AUAUUCCAGCAUAAACACA 2112 [3496-3514] 3′UTR AGGAAGAACUUUCUCGGUA 1498 UACCGAGAAAGUUCUUCCU 2113 Rh [2331-2349] 3′UTR AGAGCCUGAACCACAGGUA 1499 UACCUGUGGUUCAGGCUCU 2114 Rh, Rb, Cw, Ms, Pg [726-744] ORF GCCAAGCAGGCAGCACUUA 1500 UAAGUGCUGCCUGCUUGGC 2115 [1276-1294] 3′UTR GGGCUUUCUGCAUGUGACG 1501 CGUCACAUGCAGAAAGCCC 2116 [2011-2029] 3′UTR ACCCAGAAGAAGAGCCUGA 1502 UCAGGCUCUUCUUCUGGGU 2117 Rh, Cw, Ms, Pg [716-734] ORF CGCCUGCAUCAAGAGAAGU 1503 ACUUCUCUUGAUGCAGGCG 2118 Rh, Cw, Dg, Rt, Ms [874-892] ORF GCAGAUAUACCAACUUCUG 1504 CAGAAGUUGGUAUAUCUGC 2119 Rh [2198-2216] 3′UTR UGGACCAGUCCAUGUGAUU 1505 AAUCACAUGGACUGGUCCA 2120 Rh [2709-2727] 3′UTR UGUAACAUUUACUCCUGUU 1506 AACAGGAGUAAAUGUUACA 2121 Rh [2808-2826] 3′UTR CAGCUGUAAUCAUUCCUGU 1507 ACAGGAAUGAUUACAGCUG 2122 [2869-2887] 3′UTR GAGUUGUUGAAAGUUGACA 1508 UGUCAACUUUCAACAACUC 2123 [3550-3568] 3′UTR AGACUGCGCAUGUCUCUGA 1509 UCAGAGACAUGCGCAGUCU 2124 [3572-3590] 3′UTR UCCUGUGCUGUGUUUUUUA 1510 UAAAAAACACAGCACAGGA 2125 Rh [2882-2900] 3′UTR CCUUCUCCUUUUAGACAUG 1511 CAUGUCUAAAAGGAGAAGG 2126 [1106-1124] 3′UTR CUAAGAAACUUCCUAGGGA 1512 UCCCUAGGAAGUUUCUUAG 2127 [2249-2267] 3′UTR GCCAAGUUCUUCGCCUGCA 1513 UGCAGGCGAAGAACUUGGC 2128 Rh, Rb, Cw, Dg, Ms [863-881] ORF GCUGGACGUUGGAGGAAAG 1514 CUUUCCUCCAACGUCCAGC 2129 Rt, Ms [604-622] ORF AGGCGUUUUGCAAUGCAGA 1515 UCUGCAUUGCAAAACGCCU 2130 Cw, Rt, Ms [408-426] ORF UGUGCAUUUUGCAGAAACU 1516 AGUUUCUGCAAAAUGCACA 2131 Rh, Rt, Ms [1331-1349] 3′UTR CAGCCUGGAACCAGUGGCU 1517 AGCCACUGGUUCCAGGCUG 2132 [1529-1547] 3′UTR GCAAAAAAAGCCUCCAAGG 1518 CCUUGGAGGCUUUUUUUGC 2133 [994-1012] 3′UTR ACCUGGAUUGAGUUGCACA 1519 UGUGCAACUCAAUCCAGGU 2134 [1849-1867] 3′UTR CGUAAUUUAAAGCUCUGUU 1520 AACAGAGCUUUAAAUUACG 2135 [3438-3456] 3′UTR CUGUGCUGUGUUUUUUAUU 1521 AAUAAAAAACACAGCACAG 2136 Rh [2884-2902] 3′UTR GGCACCAGGCCAAGUUCUU 1522 AAGAACUUGGCCUGGUGCC 2137 Rh, Rb, Rt, Ms [855-873] ORF CCUGUGGCCAACUGCAAAA 1523 UUUUGCAGUUGGCCACAGG 2138 Rh [981-999] 3′UTR GGUUUCGACUGGUCCAGCU 1524 AGCUGGACCAGUCGAAACC 2139 Rh [1012-1030] 3′UTR GAAUAAAACACUCAUCCCA 1525 UGGGAUGAGUGUUUUAUUC 2140 Rh [1057-1075] 3′UTR GAGUUGCAGAUAUACCAAC 1526 GUUGGUAUAUCUGCAACUC 2141 Rh [2193-2211] 3′UTR CUUCCUGUAUGGUGAUAUC 1527 GAUAUCACCAUACAGGAAG 2142 [2786-2804] 3′UTR UUUGGUUCUCCAGUUCAAA 1528 UUUGAACUGGAGAACCAAA 2143 [3059-3077] 3′UTR GCCUGCAUCAAGAGAAGUG 1529 CACUUCUCUUGAUGCAGGC 2144 Rt, Ms [875-893] ORF GGCAACCCUAUCAAGAGGA 1530 UCCUCUUGAUAGGGUUGCC 2145 [488-506] ORF AAGCGGUCAGUGAGAAGGA 1531 UCCUUCUCACUGACCGCUU 2146 [444-462] ORF GUGGCUUUGGUGACACACU 1532 AGUGUGUCACCAAAGCCAC 2147 [2084-2102] 3′UTR AGAUCUUGAUGACUUCCCU 1533 AGGGAAGUCAUCAAGAUCU 2148 Rh [2595-2613] 3′UTR GAGACGUGGGUCCAAGGUC 1534 GACCUUGGACCCACGUCUC 2149 [1141-1159] 3′UTR UGACAUCAGCUGUAAUCAU 1535 AUGAUUACAGCUGAUGUCA 2150 [2863-2881] 3′UTR GGGAUCUCCCAGCUGGGUU 1536 AACCCAGCUGGGAGAUCCC 2151 [1295-1313] 3′UTR AGCACUUAGGGAUCUCCCA 1537 UGGGAGAUCCCUAAGUGCU 2152 Rh [1287-1305] 3′UTR GUCUUUGGUUCUCCAGUUC 1538 GAACUGGAGAACCAAAGAC 2153 [3056-3074] 3′UTR UAACCGUGCUGAGCAGAAA 1539 UUUCUGCUCAGCACGGUUA 2154 [3159-3177] 3′UTR CUGGAUGGACUGGGUCACA 1540 UGUGACCCAGUCCAUCCAG 2155 Rh, Rb, Cw, Dg, [820-838] ORF Rt, Ms, Pg GUGCUGGGAACACACAAGA 1541 UCUUGUGUGUUCCCAGCAC 2156 [3533-3551] 3′UTR AGUGGGAGCCUCCCUCUGA 1542 UCAGAGGGAGGCUCCCACU 2157 Rh [1593-1611] 3′UTR GCAGGCAGCACUUAGGGAU 1543 AUCCCUAAGUGCUGCCUGC 2158 Rh [1281-1299] 3′UTR UAUUGGACUUGCUGCCGUA 1544 UACGGCAGCAAGUCCAAUA 2159 [3423-3441] 3′UTR GAUCUUGAUGACUUCCCUU 1545 AAGGGAAGUCAUCAAGAUC 2160 Rh [2596-2614] 3′UTR ACGCCAGCUAAGCAUAGUA 1546 UACUAUGCUUAGCUGGCGU 2161 [2027-2045] 3′UTR AGGACACUAUGGCCUGUUU 1547 AAACAGGCCAUAGUGUCCU 2162 [2122-2140] 3′UTR GCCUGAACCACAGGUACCA 1548 UGGUACCUGUGGUUCAGGC 2163 Rh, Rb, Cw, Ms, Pg [729-747] ORF UGGUUUGUUUUUGACAUCA 1549 UGAUGUCAAAAACAAACCA 2164 Rh [2852-2870] 3′UTR GUGGCAGCUGACAGAGGAA 1550 UUCCUCUGUCAGCUGCCAC 2165 [3202-3220] 3′UTR CCAUCAAUCCUAUUAAUCC 1551 GGAUUAAUAGGAUUGAUGG 2166 Rh [1564-1582] 3′UTR GGACACUAUGGCCUGUUUU 1552 AAAACAGGCCAUAGUGUCC 2167 [2123-2141] 3′UTR GACCUUCCGGUGCUGGGAA 1553 UUCCCAGCACCGGAAGGUC 2168 [3524-3542] 3′UTR ACAUCCUGAGGACAGAAAA 1554 UUUUCUGUCCUCAGGAUGU 2169 Rh [1920-1938] 3′UTR AUGUAAACAUACACACGCA 1555 UGCGUGUGUAUGUUUACAU 2170 Rh [2420-2438] 3 ′UTR GCCUCCAAGGGUUUCGACU 1556 AGUCGAAACCCUUGGAGGC 2171 Rh [1003-1021] 3′UTR CUGCAUCAAGAGAAGUGAC 1557 GUCACUUCUCUUGAUGCAG 2172 Rt, Ms [877-895] ORF UGGAAGCAUUUGACCCAGA 1558 UCUGGGUCAAAUGCUUCCA 2173 [2955-2973] 3′UTR AACACACAAGAGUUGUUGA 1559 UCAACAACUCUUGUGUGUU 2174 [3541-3559] 3′UTR GGGAACUAGGGAACCUAUG 1560 CAUAGGUUCCCUAGUUCCC 2175 Rh [2264-2282] 3′UTR AUACAGGCACAUUAUGUAA 1561 UUACAUAAUGUGCCUGUAU 2176 [2407-2425] 3′UTR GACGUGGGUCCAAGGUCCU 1562 AGGACCUUGGACCCACGUC 2177 [1143-1161] 3′UTR GGGUUAGGAUAGGAAGAAC 1563 GUUCUUCCUAUCCUAACCC 2178 [2321-2339] 3′UTR GGACGAGUGCCUCUGGAUG 1564 CAUCCAGAGGCACUCGUCC 2179 Rh, Rb, Cw [808-826] ORF AAAAAGCCUCCAAGGGUUU 1565 AAACCCUUGGAGGCUUUUU 2180 [998-1016] 3′UTR CUUUGAGUAGGUUCGGUCU 1566 AGACCGAACCUACUCAAAG 2181 [3097-3115] 3′UTR GGCAGACUGGGAGGGUAUC 1567 GAUACCCUCCCAGUCUGCC 2182 Rh [2620-2638] 3′UTR GAAGGCUCUCCAUUUGGCA 1568 UGCCAAAUGGAGAGCCUUC 2183 [3271-3289] 3′UTR GCCUCCCUCUGAGCCUUGU 1569 ACAAGGCUCAGAGGGAGGC 2184 Rh [1600-1618] 3′UTR ACAAAACAGGUUAAGAAGA 1570 UCUUCUUAACCUGUUUUGU 2185 [3178-3196] 3′UTR CCUAUGUGUUCCCUCAGUG 1571 CACUGAGGGAACACAUAGG 2186 [2277-2295] 3′UTR AAAGGGCCUGAGAAGGAUA 1572 UAUCCUUCUCAGGCCCUUU 2187 [539-557] ORF GCAGACUGCGCAUGUCUCU 1573 AGAGACAUGCGCAGUCUGC 2188 [3570-3588] 3′UTR CCCUCCCAGGCUUAGUGUU 1574 AACACUAAGCCUGGGAGGG 2189 [1956-1974] 3′UTR CCUCCAAGGGUUUCGACUG 1575 CAGUCGAAACCCUUGGAGG 2190 Rh [1004-1022] 3′UTR GCUAGUUCUUGAAGGAGCC 1576 GGCUCCUUCAAGAACUAGC 2191 [1545-1563] 3′UTR CUUGAUGACUUCCCUUUCU 1577 AGAAAGGGAAGUCAUCAAG 2192 Rh [2599-2617] 3′UTR AUUAAUCCUCAGAAUUCCA 1578 UGGAAUUCUGAGGAUUAAU 2193 Rh [1575-1593] 3′UTR GACCAGUCCAUGUGAUUUC 1579 GAAAUCACAUGGACUGGUC 2194 Rh [2711-2729] 3′UTR AGUGAGAAGGAAGUGGACU 1580 AGUCCACUUCCUUCUCACU 2195 [452-470] ORF GAGAAUCUCUUGUUUCCUC 1581 GAGGAAACAAGAGAUUCUC 2196 [2358-2376] 3′UTR GGCUCUCCAUUUGGCAUCG 1582 CGAUGCCAAAUGGAGAGCC 2197 [3274-3292] 3′UTR CUUCUUGCCUGUUCUGGCA 1583 UGCCAGAACAGGCAAGAAG 2198 [1824-1842] 3′UTR CUUUAUAUUUGAUCCACAC 1584 GUGUGGAUCAAAUAUAAAG 2199 [3128-3146] 3′UTR GGGCCUGGAAAUGUGCAUU 1585 AAUGCACAUUUCCAGGCCC 2200 Rh [1320-1338] 3′UTR CUUUGGUGACACACUCACU 1586 AGUGAGUGUGUCACCAAAG 2201 [2088-2106] 3′UTR CAGCCUAGGAAGGGAAGGA 1587 UCCUUCCCUUCCUAGGCUG 2202 Rh [2053-2071] 3′UTR CUCGCUGGACGUUGGAGGA 1588 UCCUCCAACGUCCAGCGAG 2203 Rt, Ms [601-619] ORF GCUUUAUCCGGGCUUGUGU 1589 ACACAAGCCCGGAUAAAGC 2204 [1873-1891] 3′UTR UGGACUCUGGAAACGACAU 1590 AUGUCGUUUCCAGAGUCCA 2205 Rh [465-483] ORF GCAUCGUGGAAGCAUUUGA 1591 UCAAAUGCUUCCACGAUGC 2206 Rh [2949-2967] 3′UTR CCUAAAGUUGGUAAGAUGU 1592 ACAUCUUACCAACUUUAGG 2207 Rh [2685-2703] 3′UTR GUGGUCUUGCAAAAUGCUU 1593 AAGCAUUUUGCAAGACCAC 2208 [2466-2484] 3′UTR CAAGGUCCCUUCCCUAGCU 1594 AGCUAGGGAAGGGACCUUG 2209 [1789-1807] 3′UTR GCUUUGUAUCAUUCUUGAG 1595 CUCAAGAAUGAUACAAAGC 2210 [3592-3610] 3′UTR GGGCUUCGAUCCUUGGGUG 1596 CACCCAAGGAUCGAAGCCC 2211 Rh [1198-1216] 3′UTR UCAUAAUGGACCAGUCCAU 1597 AUGGACUGGUCCAUUAUGA 2212 Rh [2703-2721] 3′UTR UAUAGUUUAAGAAGGCUCU 1598 AGAGCCUUCUUAAACUAUA 2213 [3261-3279] 3′UTR UCGACAUCGAGGACCCAUA 1599 UAUGGGUCCUCGAUGUCGA 2214 Dg [945-963] ORF ACUUCUUUCUCAGCCUCCA 1600 UGGAGGCUGAGAAAGAAGU 2215 [2104-2122] 3′UTR AUUCUCAGAUGAUAGGUGA 1601 UCACCUAUCAUCUGAGAAU 2216 [2170-2188] 3′UTR UGAGAAGGAAGUGGACUCU 1602 AGAGUCCACUUCCUUCUCA 2217 [454-472] ORF CAAAGCACCUGUUAAGACU 1603 AGUCUUAACAGGUGCUUUG 2218 Rh [2523-2541] 3′UTR GCGUUCCAGCCUCAGCUGA 1604 UCAGCUGAGGCUGGAACGC 2219 [1650-1668] 3′UTR CCUGGGCGUGGUCUUGCAA 1605 UUGCAAGACCACGCCCAGG 2220 [2459-2477] 3′UTR GUCUCUGAUGCUUUGUAUC 1606 GAUACAAAGCAUCAGAGAC 2221 [3583-3601] 3′UTR CUGUGCCCUCCCAGGCUUA 1607 UAAGCCUGGGAGGGCACAG 2222 [1951-1969] 3′UTR CCUCCAACCCAUAUAACAC 1608 GUGUUAUAUGGGUUGGAGG 2223 [2753-2771] 3′UTR UUUGUAUCAUUCUUGAGCA 1609 UGCUCAAGAAUGAUACAAA 2224 [3594-3612] 3′UTR GCCUUUAUAUUUGAUCCAC 1610 GUGGAUCAAAUAUAAAGGC 2225 [3126-3144] 3′UTR AGGCCUACCAGGUCCCUUU 1611 AAAGGGACCUGGUAGGCCU 2226 Rh [1378-1396] 3′UTR GUUCUAAGCACAGCUCUCU 1612 AGAGAGCUGUGCUUAGAAC 2227 [3310-3328] 3′UTR CUGUGUUUUUUAUUACCCU 1613 AGGGUAAUAAAAAACACAG 2228 Rh [2889-2907] 3′UTR CUAGGAAGGGAAGGAUUUU 1614 AAAAUCCUUCCCUUCCUAG 2229 Rh [2057-2075] 3′UTR CAGAUGGGCUGCGAGUGCA 1615 UGCACUCGCAGCCCAUCUG 2230 Ck, Rb, Rt [746-764] ORF CUGGCAUCAGGCACCUGGA 1616 UCCAGGUGCCUGAUGCCAG 2231 [1837-1855] 3′UTR UGAUGCUUUGUAUCAUUCU 1617 AGAAUGAUACAAAGCAUCA 2232 [3588-3606] 3′UTR AGUCCAGCCUAGGAAGGGA 1618 UCCCUUCCUAGGCUGGACU 2233 Rh [2049-2067] 3′UTR CAAAGAUUACCUAGCUAAG 1619 CUUAGCUAGGUAAUCUUUG 2234 [2235-2253] 3′UTR AGAAGGAAGUGGACUCUGG 1620 CCAGAGUCCACUUCCUUCU 2235 [456-474] ORF UGUACAGUGACCUAAAGUU 1621 AACUUUAGGUCACUGUACA 2236 [2675-2693] 3′UTR

TABLE B2 19-mer siTIMP2 Cross-Species SEQ SEQ ID ID human-73858577 No. Sense (5′ > 3′) NO: Antisense (5′ > 3′) NO: Other Sp ORF: 303-965 1 UUCGCCUGCAUCAAGAGAA 2237 UUCUCUUGAUGCAGGCGAA 2354 Rh, Cw, Dg, Ms [872-890] ORF 2 GUGCAUUUUGCAGAAACUU 2238 AAGUUUCUGCAAAAUGCAC 2355 Rh, Rt, Ms [1332-1350] 3′UTR 3 GGUACCAGAUGGGCUGCGA 2239 UCGCAGCCCAUCUGGUACC 2356 Rh, Ck, Rb, Rt [741-759] ORF 4 GGUCUCGCUGGACGUUGGA 2240 UCCAACGUCCAGCGAGACC 2357 Rt, Ms [598-616] ORF 5 UCGCCUGCAUCAAGAGAAG 2241 CUUCUCUUGAUGCAGGCGA 2358 Rh, Cw, Dg, Ms [873-891] ORF 6 CUUCCUGGAAACAGCAUGA 2242 UCAUGCUGUUUCCAGGAAG 2359 Rh, Rb, Rt, Ms [1040-1058] 3′UTR 7 GGGCACCAGGCCAAGUUCU 2243 AGAACUUGGCCUGGUGCCC 2360 Rh, Rb, Rt, Ms [854-872] ORF 8 CCAGAAGAAGAGCCUGAAC 2244 GUUCAGGCUCUUCUUCUGG 2361 Rh, Rb, Cw, Ms, Pg [718-736] ORF 9 UGGACGUUGGAGGAAAGAA 2245 UUCUUUCCUCCAACGUCCA 2362 Rt, Ms [606-624] ORF 10 GGGCUGCGAGUGCAAGAUC 2246 GAUCUUGCACUCGCAGCCC 2363 Ck, Rb, Rt [751-769] ORF 11 CCACCCAGAAGAAGAGCCU 2247 AGGCUCUUCUUCUGGGUGG 2364 Rh, Ck, Cw, Rt, Ms, Pg [714-732] ORF 12 AUGGGCUGCGAGUGCAAGA 2248 UCUUGCACUCGCAGCCCAU 2365 Ck, Rb, Rt [749-767] ORF 13 AUGGACUGGGUCACAGAGA 2249 UCUCUGUGACCCAGUCCAU 2366 Rh, Rt, Ms, Pg [824-842] ORF 14 UGGGCUGCGAGUGCAAGAU 2250 AUCUUGCACUCGCAGCCCA 2367 Ck, Rb, Rt [750-768] ORF 15 ACGUUGGAGGAAAGAAGGA 2251 UCCUUCUUUCCUCCAACGU 2368 Rt, Ms [609-627] ORF 16 GACGUUGGAGGAAAGAAGG 2252 CCUUCUUUCCUCCAACGUC 2369 Rt, Ms [608-626] ORF 17 AGGCCAAGUUCUUCGCCUG 2253 CAGGCGAAGAACUUGGCCU 2370 Rh, Rb, Cw, Dg, Ms [861-879] ORF 18 GAAGAAGAGCCUGAACCAC 2254 GUGGUUCAGGCUCUUCUUC 2371 Rh, Rb, Cw, Ms, Pg [721-739] ORF 19 GCACCCGCAACAGGCGUUU 2255 AAACGCCUGUUGCGGGUGC 2372 Cw, Dg, Rt, Ms [397-415] ORF 20 UUCUUCGCCUGCAUCAAGA 2256 UCUUGAUGCAGGCGAAGAA 2373 Rh, Rb, Cw, Dg, Ms [869-887] ORF 21 GAGCCUGAACCACAGGUAC 2257 GUACCUGUGGUUCAGGCUC 2374 Rh, Rb, Cw, Ms, Pg [727-745] ORF 22 CUUCGCCUGCAUCAAGAGA 2258 UCUCUUGAUGCAGGCGAAG 2375 Rh, Rb, Cw, Dg, Ms [871-889] ORF 23 UGGAAACAGCAUGAAUAAA 2259 UUUAUUCAUGCUGUUUCCA 2376 Rh, Rb, Rt, Ms [1045-1063] 3′UTR 24 GACAUCCCUUCCUGGAAAC 2260 GUUUCCAGGAAGGGAUGUC 2377 Rh, Rt, Ms [1033-1051] 3′UTR 25 GUUCUUCGCCUGCAUCAAG 2261 CUUGAUGCAGGCGAAGAAC 2378 Rh, Rb, Cw, Dg, Ms [868-886] ORF 26 AAGUUCUUCGCCUGCAUCA 2262 UGAUGCAGGCGAAGAACUU 2379 Rh, Rb, Cw, Dg, Ms [866-884] ORF 27 CCCUUCCUGGAAACAGCAU 2263 AUGCUGUUUCCAGGAAGGG 2380 Rh, Rb, Rt, Ms [1038-1056] 3′UTR 28 CGCUCGGCCUCCUGCUGCU 2264 AGCAGCAGGAGGCCGAGCG 2381 Dg, Rt, Ms [333-351] ORF 29 UGAACCACAGGUACCAGAU 2265 AUCUGGUACCUGUGGUUCA 2382 Rh, Rb, Cw, Ms, Pg [732-750] ORF 30 CUGAACCACAGGUACCAGA 2266 UCUGGUACCUGUGGUUCAG 2383 Rh, Rb, Cw, Ms, Pg [731-749] ORF 31 CAGAAGAAGAGCCUGAACC 2267 GGUUCAGGCUCUUCUUCUG 2384 Rh, Rb, Cw, Ms, Pg [719-737] ORF 32 UCCUGGAAACAGCAUGAAU 2268 AUUCAUGCUGUUUCCAGGA 2385 Rh, Rb, Rt, Ms [1042-1060] 3′UTR 33 GAUGGACUGGGUCACAGAG 2269 CUCUGUGACCCAGUCCAUC 2386 Rh, Rt, Ms, Pg [823-841] ORF 34 GCCGACGCCUGCAGCUGCU 2270 AGCAGCUGCAGGCGUCGGC 2387 Cw, Dg, Rt, Ms [371-389] ORF 35 CAGGCGUUUUGCAAUGCAG 2271 CUGCAUUGCAAAACGCCUG 2388 Cw, Rt, Ms [407-425] ORF 36 UCAAGCAGAUAAAGAUGUU 2272 AACAUCUUUAUCUGCUUGA 2389 Cw, Dg, Rt, Ms, Pg [519-537] ORF 37 GAACCACAGGUACCAGAUG 2273 CAUCUGGUACCUGUGGUUC 2390 Rh, Rb, Cw, Rt, Ms, Pg [733-751] ORF 38 CACCCAGAAGAAGAGCCUG 2274 CAGGCUCUUCUUCUGGGUG 2391 Rh, Ck, Cw, Rt, Ms, Pg [715-733] ORF 39 CCUUCCUGGAAACAGCAUG 2275 CAUGCUGUUUCCAGGAAGG 2392 Rh, Rb, Rt, Ms [1039-1057] 3′UTR 40 CAACAGGCGUUUUGCAAUG 2276 CAUUGCAAAACGCCUGUUG 2393 Cw, Rt, Ms [404-422] ORF 41 CACAGGUACCAGAUGGGCU 2277 AGCCCAUCUGGUACCUGUG 2394 Rh, Rb, Cw, Rt, Ms, Pg [737-755] ORF 42 UCCCUUCCUGGAAACAGCA 2278 UGCUGUUUCCAGGAAGGGA 2395 Rh, Rb, Rt, Ms [1037-1055] 3′UTR 43 UGAGAUCAAGCAGAUAAAG 2279 CUUUAUCUGCUUGAUCUCA 2396 Rh, Cw, Dg, Rt, Ms [514-532] ORF 44 GGUGCACCCGCAACAGGCG 2280 CGCCUGUUGCGGGUGCACC 2397 Cw, Dg, Rt, Ms [394-412] ORF 45 AGUGCCUCUGGAUGGACUG 2281 CAGUCCAUCCAGAGGCACU 2398 Rh, Rb, Cw, Dg, Rt, Ms [813-831] ORF 46 AAGCAGAUAAAGAUGUUCA 2282 UGAACAUCUUUAUCUGCUU 2399 Cw, Dg, Rt, Ms, Pg [521-539] ORF 47 UGCACCCGCAACAGGCGUU 2283 AACGCCUGUUGCGGGUGCA 2400 Cw, Dg, Rt, Ms [396-414] ORF 48 CACCCGCAACAGGCGUUUU 2284 AAAACGCCUGUUGCGGGUG 2401 Cw, Rt, Ms [398-416] ORF 49 CUGGACGUUGGAGGAAAGA 2285 UCUUUCCUCCAACGUCCAG 2402 Rt, Ms [605-623] ORF 50 AUCCCUUCCUGGAAACAGC 2286 GCUGUUUCCAGGAAGGGAU 2403 Rh, Rb, Rt, Ms [1036-1054] 3′UTR 51 ACAGGCGUUUUGCAAUGCA 2287 UGCAUUGCAAAACGCCUGU 2404 Cw, Rt, Ms [406-424] ORF 52 GAUGGGCUGCGAGUGCAAG 2288 CUUGCACUCGCAGCCCAUC 2405 Ck, Rb, Rt [748-766] ORF 53 AGCCUGAACCACAGGUACC 2289 GGUACCUGUGGUUCAGGCU 2406 Rh, Rb, Cw, Ms, Pg [728-746] ORF 54 CCUCUGGAUGGACUGGGUC 2290 GACCCAGUCCAUCCAGAGG 2407 Rh, Rb, Cw, Dg, Rt, Ms, [817-835] ORF Pg 55 CGGGCACCAGGCCAAGUUC 2291 GAACUUGGCCUGGUGCCCG 2408 Rh, Rb, Rt, Ms [853-871] ORF 56 CAGGCCAAGUUCUUCGCCU 2292 AGGCGAAGAACUUGGCCUG 2409 Rh, Rb, Cw, Dg, Ms [860-878] ORF 57 CAAGUUCUUCGCCUGCAUC 2293 GAUGCAGGCGAAGAACUUG 2410 Rh, Rb, Cw, Dg, Ms [865-883] ORF 58 ACUUCAUCGUGCCCUGGGA 2294 UCCCAGGGCACGAUGAAGU 2411 Rh, Rb, Cw, Dg, Pg [684-702] ORF 59 ACAUCCCUUCCUGGAAACA 2295 UGUUUCCAGGAAGGGAUGU 2412 Rh, Rt, Ms [1034-1052] 3′UTR 60 UACCAGAUGGGCUGCGAGU 2296 ACUCGCAGCCCAUCUGGUA 2413 Rh, Ck, Rb, Rt [743-761] ORF 61 GGCCAAGUUCUUCGCCUGC 2297 GCAGGCGAAGAACUUGGCC 2414 Rh, Rb, Cw, Dg, Ms [862-880] ORF 62 CCAGAUGGGCUGCGAGUGC 2298 GCACUCGCAGCCCAUCUGG 2415 Rh, Ck, Rb, Rt [745-763] ORF 63 GUGACUUCAUCGUGCCCUG 2299 CAGGGCACGAUGAAGUCAC 2416 Rh, Rb, Cw, Dg, Pg [681-699] ORF 64 UCGCUGGACGUUGGAGGAA 2300 UUCCUCCAACGUCCAGCGA 2417 Rt, Ms [602-620] ORF 65 AUCAAGCAGAUAAAGAUGU 2301 ACAUCUUUAUCUGCUUGAU 2418 Cw, Dg, Rt, Ms, Pg [518-536] ORF 66 GUACCAGAUGGGCUGCGAG 2302 CUCGCAGCCCAUCUGGUAC 2419 Rh, Ck, Rb, Rt [742-760] ORF 67 CGAGUGCCUCUGGAUGGAC 2303 GUCCAUCCAGAGGCACUCG 2420 Rh, Rb, Cw, Dg, Rt, Ms [811-829] ORF 68 UCUGGAUGGACUGGGUCAC 2304 GUGACCCAGUCCAUCCAGA 2421 Rh, Rb, Cw, Dg, Rt, Ms, [819-837] ORF Pg 69 ACCAGAUGGGCUGCGAGUG 2305 CACUCGCAGCCCAUCUGGU 2422 Rh, Ck, Rb, Rt [744-762] ORF 70 ACAGGUACCAGAUGGGCUG 2306 CAGCCCAUCUGGUACCUGU 2423 Rh, Rb, Cw, Rt, Ms, Pg [738-756] ORF 71 GAAGAGCCUGAACCACAGG 2307 CCUGUGGUUCAGGCUCUUC 2424 Rh, Rb, Cw, Ms, Pg [724-742] ORF 72 GUGCACCCGCAACAGGCGU 2308 ACGCCUGUUGCGGGUGCAC 2425 Cw, Dg, Rt, Ms [395-413] ORF 73 UGGAUGGACUGGGUCACAG 2309 CUGUGACCCAGUCCAUCCA 2426 Rh, Rt, Ms, Pg [821-839] ORF 74 CAAGCAGAUAAAGAUGUUC 2310 GAACAUCUUUAUCUGCUUG 2427 Cw, Dg, Rt, Ms, Pg [520-538] ORF 75 GUGCCUCUGGAUGGACUGG 2311 CCAGUCCAUCCAGAGGCAC 2428 Rh, Rb, Cw, Dg, Rt, Ms [814-832] ORF 76 CAUCCCUUCCUGGAAACAG 2312 CUGUUUCCAGGAAGGGAUG 2429 Rh, Rb, Rt, Ms [1035-1053] 3′UTR 77 CACCAGGCCAAGUUCUUCG 2313 CGAAGAACUUGGCCUGGUG 2430 Rh, Rb, Cw, Ms [857-875] ORF 78 CCUGAACCACAGGUACCAG 2314 CUGGUACCUGUGGUUCAGG 2431 Rh, Rb, Cw, Ms, Pg [730-748] ORF 79 AACCACAGGUACCAGAUGG 2315 CCAUCUGGUACCUGUGGUU 2432 Rh, Rb, Cw, Rt, Ms, Pg [734-752] ORF 80 GUCUCGCUGGACGUUGGAG 2316 CUCCAACGUCCAGCGAGAC 2433 Rt, Ms [599-617] ORF 81 AGAGUUUAUCUACACGGCC 2317 GGCCGUGUAGAUAAACUCU 2434 Dg, Ms, Pg [559-577] ORF 82 UUCCUGGAAACAGCAUGAA 2318 UUCAUGCUGUUUCCAGGAA 2435 Rh, Rb, Rt, Ms [1041-1059] 3′UTR 83 GAUAAAGAUGUUCAAAGGG 2319 CCCUUUGAACAUCUUUAUC 2436 Dg, Rt, Ms [526-544] ORF 84 UCUUCGCCUGCAUCAAGAG 2320 CUCUUGAUGCAGGCGAAGA 2437 Rh, Rb, Cw, Dg, Ms [870-888] ORF 85 UGGCGCUCGGCCUCCUGCU 2321 AGCAGGAGGCCGAGCGCCA 2438 Dg, Rt, Ms [330-348] ORF 86 CCCGGUGCACCCGCAACAG 2322 CUGUUGCGGGUGCACCGGG 2439 Cw, Dg, Rt, Ms [391-409] ORF 87 CCCGCAACAGGCGUUUUGC 2323 GCAAAACGCCUGUUGCGGG 2440 Cw, Rt, Ms [400-418] ORF 88 CAGGGCCAAAGCGGUCAGU 2324 ACUGACCGCUUUGGCCCUG 2441 Rb, Dg [436-454] ORF 89 AAGAGCCUGAACCACAGGU 2325 ACCUGUGGUUCAGGCUCUU 2442 Rh, Rb, Cw, Ms, Pg [725-743] ORF 90 ACCACAGGUACCAGAUGGG 2326 CCCAUCUGGUACCUGUGGU 2443 Rh, Rb, Cw, Rt, Ms, Pg [735-753] ORF 91 CAGGUACCAGAUGGGCUGC 2327 GCAGCCCAUCUGGUACCUG 2444 Rh, Rb, Cw, Dg, Rt, Ms, [739-757] ORF Pg 92 CGGUGCACCCGCAACAGGC 2328 GCCUGUUGCGGGUGCACCG 2445 Cw, Dg, Rt, Ms [393-411] ORF 93 GCUCGGCCUCCUGCUGCUG 2329 CAGCAGCAGGAGGCCGAGC 2446 Dg, Rt, Ms [334-352] ORF 94 GACGCCUGCAGCUGCUCCC 2330 GGGAGCAGCUGCAGGCGUC 2447 Cw, Dg, Rt, Ms [374-392] ORF 95 ACCCGCAACAGGCGUUUUG 2331 CAAAACGCCUGUUGCGGGU 2448 Cw, Rt, Ms [399-417] ORF 96 CCGGUGCACCCGCAACAGG 2332 CCUGUUGCGGGUGCACCGG 2449 Cw, Dg, Rt, Ms [392-410] ORF 97 UCUCGCUGGACGUUGGAGG 2333 CCUCCAACGUCCAGCGAGA 2450 Rt, Ms [600-618] ORF 98 AACAGCAUGAAUAAAACAC 2334 GUGUUUUAUUCAUGCUGUU 2451 Rh, Rt, Ms [1049-1067] 3′UTR 99 CCACAGGUACCAGAUGGGC 2335 GCCCAUCUGGUACCUGUGG 2452 Rh, Rb, Cw, Rt, Ms, Pg [736-754] ORF 100 CCGACGCCUGCAGCUGCUC 2336 GAGCAGCUGCAGGCGUCGG 2453 Cw, Dg, Rt, Ms [372-390] ORF 101 UUCAUCGUGCCCUGGGACA 2337 UGUCCCAGGGCACGAUGAA 2454 Rh, Rb, Cw, Dg, Pg [686-704] ORF 102 CUUCAUCGUGCCCUGGGAC 2338 GUCCCAGGGCACGAUGAAG 2455 Rh, Rb, Cw, Dg, Pg [685-703] ORF 103 CGACGCCUGCAGCUGCUCC 2339 GGAGCAGCUGCAGGCGUCG 2456 Cw, Dg, Rt, Ms [373-391] ORF 104 UGCCUCUGGAUGGACUGGG 2340 CCCAGUCCAUCCAGAGGCA 2457 Rh, Rb, Cw, Dg, Rt, Ms [815-833] ORF 105 ACCAGGCCAAGUUCUUCGC 2341 GCGAAGAACUUGGCCUGGU 2458 Rh, Rb, Cw, Ms [858-876] ORF 106 AGGUACCAGAUGGGCUGCG 2342 CGCAGCCCAUCUGGUACCU 2459 Rh, Ck, Rb, Rt [740-758] ORF 107 CUCGGCCUCCUGCUGCUGG 2343 CCAGCAGCAGGAGGCCGAG 2460 Dg, Rt [335-353] ORF 108 AACAGGCGUUUUGCAAUGC 2344 GCAUUGCAAAACGCCUGUU 2461 Cw, Rt, Ms [405-423] ORF 109 UCGGCCUCCUGCUGCUGGC 2345 GCCAGCAGCAGGAGGCCGA 2462 Dg, Rt [336-354] ORF 110 CCAGGCCAAGUUCUUCGCC 2346 GGCGAAGAACUUGGCCUGG 2463 Rh, Rb, Cw, Dg, Ms [859-877] ORF 111 UGUGACUUCAUCGUGCCCU 2347 AGGGCACGAUGAAGUCACA 2464 Rh, Rb, Cw, Dg, Pg [680-698] ORF 112 GACUUCAUCGUGCCCUGGG 2348 CCCAGGGCACGAUGAAGUC 2465 Rh, Rb, Cw, Dg, Pg [683-701] ORF 113 CUGUGACUUCAUCGUGCCC 2349 GGGCACGAUGAAGUCACAG 2466 Rh, Rb, Cw, Dg, Pg [679-697] ORF 114 UGACUUCAUCGUGCCCUGG 2350 CCAGGGCACGAUGAAGUCA 2467 Rh, Rb, Cw, Dg, Pg [682-700] ORF 616 GCAGGAGUUUCUCGACAUC 2351 GAUGUCGAGAAACUCCUGC 2468 Dg, Ck [934-952] ORF 617 GCACCACCCAGAAGAAGAG 2352 CUCUUCUUCUGGGUGGUGC 2469 Pg, Rh [711-729] ORF 618 AGCUCUGACAUCCCUUCCU 2353 AGGAAGGGAUGUCAGAGCU 2470 Rh [1027-1045] 3′UTR

TABLE B3 Preferred 19-mer siTIMP2 SEQ SEQ ID ID siTIMP2_pNo. Sense (5′ > 3′) NO: Antisense (5′ > 3′) NO: length position siTIMP2_p4 GGCUGCGAGUGCAAGAUCA 2471 UGAUCUUGCACUCGCAGCC 2524 19 [752-770] ORF siTIMP2_p16 GUAUGAGAUCAAGCAGAUA 2472 UAUCUGCUUGAUCUCAUAC 2525 19 [511-529] ORF siTIMP2_p17 GAGGAAAGAAGGAAUAUCU 2473 AGAUAUUCCUUCUUUCCUC 2526 19 [615-633] ORF siTIMP2_p18 CCUGCAUCAAGAGAAGUGA 2474 UCACUUCUCUUGAUGCAGG 2527 19 [876-894] ORF siTIMP2_p20 AUGAGAUCAAGCAGAUAAA 2475 UUUAUCUGCUUGAUCUCAU 2528 19 [513-531] ORF siTIMP2_p24 GUUGGAGGAAAGAAGGAAU 2476 AUUCCUUCUUUCCUCCAAC 2529 19 [611-629] ORF siTIMP2_p25 ACUGGGUCACAGAGAAGAA 2477 UUCUUCUCUGUGACCCAGU 2530 19 [828-846] ORF siTIMP2_p27 CUCUGGAUGGACUGGGUCA 2478 UGACCCAGUCCAUCCAGAG 2531 19 [818-836] ORF siTIMP2_p29 GGCGUUUUGCAAUGCAGAU 2479 AUCUGCAUUGCAAAACGCC 2532 19 [409-427] ORF siTIMP2_p30 GCCUCUGGAUGGACUGGGU 2480 ACCCAGUCCAUCCAGAGGC 2533 19 [816-834] ORF siTIMP2_p33 GGAGGAAAGAAGGAAUAUC 2481 GAUAUUCCUUCUUUCCUCC 2534 19 [614-632] ORF siTIMP2_p35 GGACUGGGUCACAGAGAAG 2482 CUUCUCUGUGACCCAGUCC 2535 19 [826-844] ORF siTIMP2_p37 GGACGUUGGAGGAAAGAAG 2483 CUUCUUUCCUCCAACGUCC 2536 19 [607-625] ORF siTIMP2_p38 CGUUGGAGGAAAGAAGGAA 2484 UUCCUUCUUUCCUCCAACG 2537 19 [610-628] ORF siTIMP2_p39 CUGACAUCCCUUCCUGGAA 2485 UUCCAGGAAGGGAUGUCAG 2538 19 [1031-1049]3′UTR siTIMP2_p40 UGACAUCCCUUCCUGGAAA 2486 UUUCCAGGAAGGGAUGUCA 2539 19 [1032-1050]3′UTR siTIMP2_p41 AGAUGGGCUGCGAGUGCAA 2487 UUGCACUCGCAGCCCAUCU 2540 19 [747-765] ORF siTIMP2_p44 GGGUCUCGCUGGACGUUGG 2488 CCAACGUCCAGCGAGACCC 2541 19 [597-615] ORF siTIMP2_p46 GAGUGCCUCUGGAUGGACU 2489 AGUCCAUCCAGAGGCACUC 2542 19 [812-830] ORF siTIMP2_p51 AGCAGAUAAAGAUGUUCAA 2490 UUGAACAUCUUUAUCUGCU 2543 19 [522-540] ORF siTIMP2_p55 GCAACAGGCGUUUUGCAAU 2491 AUUGCAAAACGCCUGUUGC 2544 19 [403-421] ORF siTIMP2_p61 GCUGGACGUUGGAGGAAAG 2492 CUUUCCUCCAACGUCCAGC 2545 19 [604-622] ORF siTIMP2_p62 UGUGCAUUUUGCAGAAACU 2493 AGUUUCUGCAAAAUGCACA 2546 19 [1331-1349]3′UTR siTIMP2_p64 GGCACCAGGCCAAGUUCUU 2494 AAGAACUUGGCCUGGUGCC 2547 19 [855-873] ORF siTIMP2_p65 GCCUGCAUCAAGAGAAGUG 2495 CACUUCUCUUGAUGCAGGC 2548 19 [875-893] ORF siTIMP2_p67 CUGGAUGGACUGGGUCACA 2496 UGUGACCCAGUCCAUCCAG 2549 19 [820-838] ORF siTIMP2_p68 CUGCAUCAAGAGAAGUGAC 2497 GUCACUUCUCUUGAUGCAG 2550 19 [877-895] ORF siTIMP2_p69 CUCGCUGGACGUUGGAGGA 2498 UCCUCCAACGUCCAGCGAG 2551 19 [601-619] ORF siTIMP2_p71 CAGAUGGGCUGCGAGUGCA 2499 UGCACUCGCAGCCCAUCUG 2552 19 [746-764] ORF siTIMP2_p75 GUGCAUUUUGCAGAAACUU 2500 AAGUUUCUGCAAAAUGCAC 2553 19 [1332-1350]3′UTR siTIMP2_p76 GGUACCAGAUGGGCUGCGA 2501 UCGCAGCCCAUCUGGUACC 2554 19 [741-759] ORF siTIMP2_p78 GGUCUCGCUGGACGUUGGA 2502 UCCAACGUCCAGCGAGACC 2555 19 [598-616] ORF siTIMP2_p79 CUUCCUGGAAACAGCAUGA 2503 UCAUGCUGUUUCCAGGAAG 2556 19 [1040-1058]3′UTR siTIMP2_p82 GGGCACCAGGCCAAGUUCU 2504 AGAACUUGGCCUGGUGCCC 2557 19 [854-872] ORF siTIMP2_p83 GUCACAGAGAAGAACAUCA 2505 UGAUGUUCUUCUCUGUGAC 2558 19 [833-851] ORF siTIMP2_p84 AGGAGUUUCUCGACAUCGA 2506 UCGAUGUCGAGAAACUCCU 2559 19 [936-954] ORF siTIMP2_p85 CCCAGAAGAAGAGCCUGAA 2507 UUCAGGCUCUUCUUCUGGG 2560 19 [717-735] ORF siTIMP2_p86 GGGUCACAGAGAAGAACAU 2508 AUGUUCUUCUCUGUGACCC 2561 19 [831-849] ORF siTIMP2_p87 CCAAGUUCUUCGCCUGCAU 2509 AUGCAGGCGAAGAACUUGG 2562 19 [864-882] ORF siTIMP2_p88 AGCACCACCCAGAAGAAGA 2510 UCUUCUUCUGGGUGGUGCU 2563 19 [710-728] ORF siTIMP2_p89 GUUUUGCAAUGCAGAUGUA 2511 UACAUCUGCAUUGCAAAAC 2564 19 [412-430] ORF siTIMP2_p90 AGCAGGAGUUUCUCGACAU 2512 AUGUCGAGAAACUCCUGCU 2565 19 [933-951] ORF siTIMP2_p91 GGAGUUUCUCGACAUCGAG 2513 CUCGAUGUCGAGAAACUCC 2566 19 [937-955] ORF siTIMP2_p92 GCCUGAACCACAGGUACCA 2514 UGGUACCUGUGGUUCAGGC 2567 19 [729-747] ORF siTIMP2_p93 UUCGCCUGCAUCAAGAGAA 2515 UUCUCUUGAUGCAGGCGAA 2568 19 [872-890] ORF siTIMP2_p94 AGAGCCUGAACCACAGGUA 2516 UACCUGUGGUUCAGGCUCU 2569 19 [726-744] ORF siTIMP2_p95 GCAGGAGUUUCUCGACAUC 2517 GAUGUCGAGAAACUCCUGC 2570 19 [934-952] ORF siTIMP2_p96 GCACCACCCAGAAGAAGAG 2518 CUCUUCUUCUGGGUGGUGC 2571 19 [711-729] ORF siTIMP2_p97 GGACGAGUGCCUCUGGAUG 2519 CAUCCAGAGGCACUCGUCC 2572 19 [808-826] ORF siTIMP2_p98 GACUGGUCCAGCUCUGACA 2520 UGUCAGAGCUGGACCAGUC 2573 19 [1018-1036] 3′UTR siTIMP2_p99 ACAUCACCCUCUGUGACUU 2521 AAGUCACAGAGGGUGAUGU 2574 19 [669-687] ORF siTIMP2_p100 CCGGACGAGUGCCUCUGGA 2522 UCCAGAGGCACUCGUCCGG 2575 19 [806-824] ORF siTIMP2_p101 UCGCCUGCAUCAAGAGAAG 2523 CUUCUCUUGAUGCAGGCGA 2576 19 [873-891] ORF SiTIMP2_p102 GGAAGAACUUUCUCGGUAA 1007 UUACCGAGAAAGUUCUUCC 1622 19 [2332-2350]3′UTR

TABLE B4 19 mer siTIMP2 with lowest predicted OT effect SEQ SEQ ID ID No. in Table Cross species: Ranking Sense (5′ > 3′) NO: Antisense (5′ > 3′) NO: B3 H/Rt 4 CUCUGGAUGGACUGGGUCA 2478 UGACCCAGUCCAUCCAGAG 2531 siTIMP2_p27 H/Rt 3 GGCGUUUUGCAAUGCAGAU 2479 AUCUGCAUUGCAAAACGCC 2532 siTIMP2_p29 H/Rt 4 GCCUCUGGAUGGACUGGGU 2480 ACCCAGUCCAUCCAGAGGC 2533 siTIMP2_p30 H/Rt 4 CUGACAUCCCUUCCUGGAA 2485 UUCCAGGAAGGGAUGUCAG 2538 siTIMP2_p39 H/Rt 3 UGACAUCCCUUCCUGGAAA 2486 UUUCCAGGAAGGGAUGUCA 2539 siTIMP2_p40 H/Rt 4 AGAUGGGCUGCGAGUGCAA 2487 UUGCACUCGCAGCCCAUCU 2540 siTIMP2_p41 H/Rt 4 GAGUGCCUCUGGAUGGACU 2489 AGUCCAUCCAGAGGCACUC 2542 siTIMP2_p46 H/Rt 2 GCAACAGGCGUUUUGCAAU 2491 AUUGCAAAACGCCUGUUGC 2544 siTIMP2_p55 H/Rt 4 UGUGCAUUUUGCAGAAACU 2493 AGUUUCUGCAAAAUGCACA 2546 siTIMP2_p62 H/Rt 3 CUGCAUCAAGAGAAGUGAC 2497 GUCACUUCUCUUGAUGCAG 2550 siTIMP2_p68 H/Rt 1 CUCGCUGGACGUUGGAGGA 2498 UCCUCCAACGUCCAGCGAG 2551 siTIMP2_p69 H/Rt 4 CAGAUGGGCUGCGAGUGCA 2499 UGCACUCGCAGCCCAUCUG 2552 siTIMP2_p71 H/Rt 2 GGUACCAGAUGGGCUGCGA 2501 UCGCAGCCCAUCUGGUACC 2554 siTIMP2_p76 H/Rt 2 GGUCUCGCUGGACGUUGGA 2502 UCCAACGUCCAGCGAGACC 2555 siTIMP2_p78 H/Rt (Rt Cross 1MM) 4 GUUUUGCAAUGCAGAUGUA 2511 UACAUCUGCAUUGCAAAAC 2564 siTIMP2_p89 H/Rt (Rt Cross 1MM) 3 GGAGUUUCUCGACAUCGAG 2513 CUCGAUGUCGAGAAACUCC 2566 siTIMP2_p91 H/Rt (Rt Cross 1MM) 2 UUCGCCUGCAUCAAGAGAA 2515 UUCUCUUGAUGCAGGCGAA 2568 siTIMP2_p93 H/Rt (Rt Cross 1MM) 4 GCAGGAGUUUCUCGACAUC 2517 GAUGUCGAGAAACUCCUGC 2570 siTIMP2_p95 H/Rt (Rt Cross 1MM) 3 GGACGAGUGCCUCUGGAUG 2519 CAUCCAGAGGCACUCGUCC 2572 siTIMP2_p97 H/Rt (Rt Cross 1MM) 4 GACUGGUCCAGCUCUGACA 2520 UGUCAGAGCUGGACCAGUC 2573 siTIMP2_p98 H/Rt (Rt Cross 1MM) 2 CCGGACGAGUGCCUCUGGA 2522 UCCAGAGGCACUCGUCCGG 2575 siTIMP2_p100

TABLE B5 18-mer siTIMP2 SEQ SEQ ID ID human-73858577 No. Sense (5′ > 3′) NO: Antisense (5′ > 3′) NO: Other Sp ORF: 303-965 1 CCAUGUGAUUUCAGUAUA 2577 UAUACUGAAAUCACAUGG 3612 Rh [2718-2735] 3′UTR 2 CUCUGAGCCUUGUAGAAA 2578 UUUCUACAAGGCUCAGAG 3613 Rh [1606-1623] 3′UTR 3 GGUAAUGAUAAGGAGAAU 2579 AUUCUCCUUAUCAUUACC 3614 [2346-2363] 3′UTR 4 GAUGCUUUGUAUCAUUCU 2580 AGAAUGAUACAAAGCAUC 3615 [3589-3606] 3′UTR 5 GGGUCUGGAGGGAGACGU 2581 ACGUCUCCCUCCAGACCC 3616 [1130-1147] 3′UTR 6 GAUCCAGUAUGAGAUCAA 2582 UUGAUCUCAUACUGGAUC 3617 Rh, Rb [505-522] ORF 7 CUGAGAAGGAUAUAGAGU 2583 ACUCUAUAUCCUUCUCAG 3618 [546-563] ORF 8 GUAUCAUUCUUGAGCAAU 2584 AUUGCUCAAGAAUGAUAC 3619 [3597-3614] 3′UTR 9 GCCUGAGAAGGAUAUAGA 2585 UCUAUAUCCUUCUCAGGC 3620 [544-561] ORF 10 GGCUAGUUCUUGAAGGAG 2586 CUCCUUCAAGAACUAGCC 3621 [1544-1561] 3′UTR 11 GGGUCACAGAGAAGAACA 2587 UGUUCUUCUCUGUGACCC 3622 Rh [831-848] ORF 12 GGAUCUUUGAGUAGGUUC 2588 GAACCUACUCAAAGAUCC 3623 [3093-3110] 3′UTR 13 GGAAGUGGACUCUGGAAA 2589 UUUCCAGAGUCCACUUCC 3624 [460-477] ORF 14 GAACCUGAGUUGCAGAUA 2590 UAUCUGCAACUCAGGUUC 3625 Rh [2187-2204] 3′UTR 15 GGUCCAAGGUCCUCAUCC 2591 GGAUGAGGACCUUGGACC 3626 [1149-1166] 3′UTR 16 GUAUUAGACUUGCACUUU 2592 AAAGUGCAAGUCUAAUAC 3627 [2914-2931] 3′UTR 17 CCUGCAAGCAACUCAAAA 2593 UUUUGAGUUGCUUGCAGG 3628 [3343-3360] 3′UTR 18 GGAGGAAAGAAGGAAUAU 2594 AUAUUCCUUCUUUCCUCC 3629 Rt [614-631] ORF 19 GGAAUAUGAAGUCUGAGA 2595 UCUCAGACUUCAUAUUCC 3630 Ms [3508-3525] 3′UTR 20 GGACGUUGGAGGAAAGAA 2596 UUCUUUCCUCCAACGUCC 3631 Rt, Ms [607-624] ORF 21 CAGUGAGAAGGAAGUGGA 2597 UCCACUUCCUUCUCACUG 3632 [451-468] ORF 22 AGAGGAUCCAGUAUGAGA 2598 UCUCAUACUGGAUCCUCU 3633 Rh, Rb [501-518] ORF 23 GGUCAGUGAGAAGGAAGU 2599 ACUUCCUUCUCACUGACC 3634 [448-465] ORF 24 CUUGGUAGGUAUUAGACU 2600 AGUCUAAUACCUACCAAG 3635 [2906-2923] 3′UTR 25 GGGCAGACUGGGAGGGUA 2601 UACCCUCCCAGUCUGCCC 3636 Rh [2619-2636] 3′UTR 26 CCAGUAUGAGAUCAAGCA 2602 UGCUUGAUCUCAUACUGG 3637 Rh, Rb, Cw, Dg, Ms [508-525] ORF 27 GGGUCUCGCUGGACGUUG 2603 CAACGUCCAGCGAGACCC 3638 Rt, Ms [597-614] ORF 28 GCAGAUAUACCAACUUCU 2604 AGAAGUUGGUAUAUCUGC 3639 Rh [2198-2215] 3′UTR 29 AGACGUGGGUCCAAGGUC 2605 GACCUUGGACCCACGUCU 3640 [1142-1159] 3′UTR 30 CACAGAUCUUGAUGACUU 2606 AAGUCAUCAAGAUCUGUG 3641 Rh [2592-2609] 3′UTR 31 GGAUUGAGUUGCACAGCU 2607 AGCUGUGCAACUCAAUCC 3642 [1853-1870] 3′UTR 32 GGGUCCAAAUUAAUAUGA 2608 UCAUAUUAAUUUGGACCC 3643 [1077-1094] 3′UTR 33 GUGAGAAGGAAGUGGACU 2609 AGUCCACUUCCUUCUCAC 3644 [453-470] ORF 34 ACCUUAGCCUGUUCUAUU 2610 AAUAGAACAGGCUAAGGU 3645 Rh [2493-2510] 3′UTR 35 GGUGCUGGGAACACACAA 2611 UUGUGUGUUCCCAGCACC 3646 [3532-3549] 3′UTR 36 GCAUGUCUCUGAUGCUUU 2612 AAAGCAUCAGAGACAUGC 3647 [3579-3596] 3′UTR 37 GCAAGCAACUCAAAAUAU 2613 AUAUUUUGAGUUGCUUGC 3648 [3346-3363] 3′UTR 38 GGCGUGGUCUUGCAAAAU 2614 AUUUUGCAAGACCACGCC 3649 [2463-2480] 3′UTR 39 CGUCUUUGGUUCUCCAGU 2615 ACUGGAGAACCAAAGACG 3650 [3055-3072] 3′UTR 40 GUUCUCCAGUUCAAAUUA 2616 UAAUUUGAACUGGAGAAC 3651 [3063-3080] 3′UTR 41 AGUAUGAGAUCAAGCAGA 2617 UCUGCUUGAUCUCAUACU 3652 Rh, Rb, Cw, Dg, Ms [510-527] ORF 42 GCCUGUUUUAAGAGACAU 2618 AUGUCUCUUAAAACAGGC 3653 Rh [2133-2150] 3′UTR 43 GGGCCUGAGAAGGAUAUA 2619 UAUAUCCUUCUCAGGCCC 3654 [542-559] ORF 44 GCCUGGAACCAGUGGCUA 2620 UAGCCACUGGUUCCAGGC 3655 [1531-1548] 3′UTR 45 CCAACUUCUGCUUGUAUU 2621 AAUACAAGCAGAAGUUGG 3656 Rh [2207-2224] 3′UTR 46 CGAUAUACAGGCACAUUA 2622 UAAUGUGCCUGUAUAUCG 3657 [2403-2420] 3′UTR 47 GGCCUAUGCAGGUGGAUU 2623 AAUCCACCUGCAUAGGCC 3658 Rh [2985-3002] 3′UTR 48 GGGAGGGUAUCCAGGAAU 2624 AUUCCUGGAUACCCUCCC 3659 Rh [2628-2645] 3′UTR 49 CCUAUUAAUCCUCAGAAU 2625 AUUCUGAGGAUUAAUAGG 3660 Rh [1572-1589] 3′UTR 50 GGGAGACGUGGGUCCAAG 2626 CUUGGACCCACGUCUCCC 3661 [1139-1156] 3′UTR 51 GCUCAAAUACCUUCACAA 2627 UUGUGAAGGUAUUUGAGC 3662 [3224-3241] 3′UTR 52 CCAAGGUCCUCAUCCCAU 2628 AUGGGAUGAGGACCUUGG 3663 [1152-1169] 3′UTR 53 AGUAAGAAGUCCAGCCUA 2629 UAGGCUGGACUUCUUACU 3664 Rh [2042-2059] 3′UTR 54 GGACUGGGUCACAGAGAA 2630 UUCUCUGUGACCCAGUCC 3665 Rh, Rt, Ms, Pg [826-843] ORF 55 AGCUAAGCAUAGUAAGAA 2631 UUCUUACUAUGCUUAGCU 3666 [2032-2049] 3′UTR 56 GGUUUGUUUUUGACAUCA 2632 UGAUGUCAAAAACAAACC 3667 Rh [2853-2870] 3′UTR 57 GGAGUUUCUCGACAUCGA 2633 UCGAUGUCGAGAAACUCC 3668 Ck, Dg [937-954] ORF 58 GAGUCUUUUUGGUCUGCA 2634 UGCAGACCAAAAAGACUC 3669 [1667-1684] 3′UTR 59 AGGAGAAUCUCUUGUUUC 2635 GAAACAAGAGAUUCUCCU 3670 [2356-2373] 3′UTR 60 CGGUAAUGAUAAGGAGAA 2636 UUCUCCUUAUCAUUACCG 3671 [2345-2362] 3′UTR 61 GGUAUUAGACUUGCACUU 2637 AAGUGCAAGUCUAAUACC 3672 [2913-2930] 3′UTR 62 CGGUCAGUGAGAAGGAAG 2638 CUUCCUUCUCACUGACCG 3673 [447-464] ORF 63 GCGGUCAGUGAGAAGGAA 2639 UUCCUUCUCACUGACCGC 3674 [446-463] ORF 64 UCCUGAAGCCAGUGAUAU 2640 AUAUCACUGGCUUCAGGA 3675 [2301-2318] 3′UTR 65 AGAAGAGCCUGAACCACA 2641 UGUGGUUCAGGCUCUUCU 3676 Rh, Rb, Cw, Ms, Pg [723-740] ORF 66 GAAAGAAGGAAUAUCUCA 2642 UGAGAUAUUCCUUCUUUC 3677 [618-635] ORF 67 GCCGUAAUUUAAAGCUCU 2643 AGAGCUUUAAAUUACGGC 3678 [3436-3453] 3′UTR 68 CGUGGACAAUAAACAGUA 2644 UACUGUUUAUUGUCCACG 3679 [3624-3641] 3′UTR 69 GUGAAUUCUCAGAUGAUA 2645 UAUCAUCUGAGAAUUCAC 3680 [2166-2183] 3′UTR 70 GGAACACACAAGAGUUGU 2646 ACAACUCUUGUGUGUUCC 3681 [3539-3556] 3′UTR 71 GAGGAUCCAGUAUGAGAU 2647 AUCUCAUACUGGAUCCUC 3682 Rh, Rb [502-519] ORF 72 UGAGAAGGAUAUAGAGUU 2648 AACUCUAUAUCCUUCUCA 3683 [547-564] ORF 73 GCGUGGUCUUGCAAAAUG 2649 CAUUUUGCAAGACCACGC 3684 [2464-2481] 3′UTR 74 CUGUUUUAAGAGACAUCU 2650 AGAUGUCUCUUAAAACAG 3685 Rh [2135-2152] 3′UTR 75 CCCUCAGUGUGGUUUCCU 2651 AGGAAACCACACUGAGGG 3686 [2287-2304] 3′UTR 76 GAGUUGCAGAUAUACCAA 2652 UUGGUAUAUCUGCAACUC 3687 Rh [2193-2210] 3′UTR 77 CUGGGAACACACAAGAGU 2653 ACUCUUGUGUGUUCCCAG 3688 [3536-3553] 3′UTR 78 GCUGAGUCUUUUUGGUCU 2654 AGACCAAAAAGACUCAGC 3689 Rh [1664-1681] 3′UTR 79 CUGCAUCAAGAGAAGUGA 2655 UCACUUCUCUUGAUGCAG 3690 Rt, Ms [877-894] ORF 80 GAGGAAAGAAGGAAUAUC 2656 GAUAUUCCUUCUUUCCUC 3691 Rt [615-632] ORF 81 GCUGGACGUUGGAGGAAA 2657 UUUCCUCCAACGUCCAGC 3692 Rt, Ms [604-621] ORF 82 GGUGUGGCCUUUAUAUUU 2658 AAAUAUAAAGGCCACACC 3693 [3120-3137] 3′UTR 83 GCAUUUUGCAGAAACUUU 2659 AAAGUUUCUGCAAAAUGC 3694 Rh [1334-1351] 3′UTR 84 GGACCAGUCCAUGUGAUU 2660 AAUCACAUGGACUGGUCC 3695 Rh [2710-2727] 3′UTR 85 CACCUUAGCCUGUUCUAU 2661 AUAGAACAGGCUAAGGUG 3696 Rh [2492-2509] 3′UTR 86 UGAUAAGGAGAAUCUCUU 2662 AAGAGAUUCUCCUUAUCA 3697 Rh [2351-2368] 3′UTR 87 CUCAAAGACUGACAGCCA 2663 UGGCUGUCAGUCUUUGAG 3698 Rh [1981-1998] 3′UTR 88 GGGACAUGGCCCUUGUUU 2664 AAACAAGGGCCAUGUCCC 3699 [1407-1424] 3′UTR 89 CCAUCAAUCCUAUUAAUC 2665 GAUUAAUAGGAUUGAUGG 3700 Rh [1564-1581] 3′UTR 90 GAACCAGUGGCUAGUUCU 2666 AGAACUAGCCACUGGUUC 3701 [1536-1553] 3′UTR 91 AGACAUGGUUGUGGGUCU 2667 AGACCCACAACCAUGUCU 3702 [1118-1135] 3′UTR 92 GUUUAAGAAGGCUCUCCA 2668 UGGAGAGCCUUCUUAAAC 3703 [3265-3282] 3′UTR 93 CUUCCUGUAUGGUGAUAU 2669 AUAUCACCAUACAGGAAG 3704 [2786-2803] 3′UTR 94 GGACCUGGUCAGCACAGA 2670 UCUGUGCUGACCAGGUCC 3705 Rh [2580-2597] 3′UTR 95 GAGACGUGGGUCCAAGGU 2671 ACCUUGGACCCACGUCUC 3706 [1141-1158] 3′UTR 96 GGAACCAGUGGCUAGUUC 2672 GAACUAGCCACUGGUUCC 3707 [1535-1552] 3′UTR 97 GGGCAGCCUGGAACCAGU 2673 ACUGGUUCCAGGCUGCCC 3708 [1526-1543] 3′UTR 98 GCAUCAGGCACCUGGAUU 2674 AAUCCAGGUGCCUGAUGC 3709 [1840-1857] 3′UTR 99 GGCGUUUUGCAAUGCAGA 2675 UCUGCAUUGCAAAACGCC 3710 Cw, Rt, Ms [409-426] ORF 100 CCUCCAACCCAUAUAACA 2676 UGUUAUAUGGGUUGGAGG 3711 [2753-2770] 3′UTR 101 GCCUUUAUAUUUGAUCCA 2677 UGGAUCAAAUAUAAAGGC 3712 [3126-3143] 3′UTR 102 GCACAGAUCUUGAUGACU 2678 AGUCAUCAAGAUCUGUGC 3713 Rh [2591-2608] 3′UTR 103 GUCCCUUUCAUCUUGAGA 2679 UCUCAAGAUGAAAGGGAC 3714 Rh [1389-1406] 3′UTR 104 GGAAGCAUUUGACCCAGA 2680 UCUGGGUCAAAUGCUUCC 3715 [2956-2973] 3′UTR 105 GGCAGACUGGGAGGGUAU 2681 AUACCCUCCCAGUCUGCC 3716 Rh [2620-2637] 3′UTR 106 GCUUUGUAUCAUUCUUGA 2682 UCAAGAAUGAUACAAAGC 3717 [3592-3609] 3′UTR 107 GAGGAAGCCGCUCAAAUA 2683 UAUUUGAGCGGCUUCCUC 3718 [3215-3232] 3′UTR 108 CCUUCUCCUUUUAGACAU 2684 AUGUCUAAAAGGAGAAGG 3719 [1106-1123] 3′UTR 109 GGGCGUGGUCUUGCAAAA 2685 UUUUGCAAGACCACGCCC 3720 [2462-2479] 3′UTR 110 GCUGAGCAGAAAACAAAA 2686 UUUUGUUUUCUGCUCAGC 3721 [3166-3183] 3′UTR 111 GACCAGUCCAUGUGAUUU 2687 AAAUCACAUGGACUGGUC 3722 Rh [2711-2728] 3′UTR 112 GAGAAUCUCUUGUUUCCU 2688 AGGAAACAAGAGAUUCUC 3723 [2358-2375] 3′UTR 113 UCCUAUUAAUCCUCAGAA 2689 UUCUGAGGAUUAAUAGGA 3724 Rh [1571-1588] 3′UTR 114 CACAGAGAAGAACAUCAA 2690 UUGAUGUUCUUCUCUGUG 3725 Rh [835-852] ORF 115 GCCUGCAUCAAGAGAAGU 2691 ACUUCUCUUGAUGCAGGC 3726 Rt, Ms [875-892] ORF 116 GGUGACACACUCACUUCU 2692 AGAAGUGAGUGUGUCACC 3727 [2092-2109] 3′UTR 117 AGGAAAGAAGGAAUAUCU 2693 AGAUAUUCCUUCUUUCCU 3728 Rt [616-633] ORF 118 CCACCUGUGUUGUAAAGA 2694 UCUUUACAACACAGGUGG 3729 Rh [2377-2394] 3′UTR 119 GUCCAUGUGAUUUCAGUA 2695 UACUGAAAUCACAUGGAC 3730 Rh [2716-2733] 3′UTR 120 AGUGGACUCUGGAAACGA 2696 UCGUUUCCAGAGUCCACU 3731 Rh [463-480] ORF 121 GACAUCAGCUGUAAUCAU 2697 AUGAUUACAGCUGAUGUC 3732 [2864-2881] 3′UTR 122 GCCUGUUCUAUUCAGCGG 2698 CCGCUGAAUAGAACAGGC 3733 [2499-2516] 3′UTR 123 AGAUCAAGCAGAUAAAGA 2699 UCUUUAUCUGCUUGAUCU 3734 Cw, Dg, Rt, Ms [516-533] ORF 124 GUCUCUGAUGCUUUGUAU 2700 AUACAAAGCAUCAGAGAC 3735 [3583-3600] 3′UTR 125 GUUCAAAGGGCCUGAGAA 2701 UUCUCAGGCCCUUUGAAC 3736 [535-552] ORF 126 GGGAACUAGGGAACCUAU 2702 AUAGGUUCCCUAGUUCCC 3737 Rh [2264-2281] 3′UTR 127 AUGAUAAGGAGAAUCUCU 2703 AGAGAUUCUCCUUAUCAU 3738 [2350-2367] 3′UTR 128 CUUAGCCUGUUCUAUUCA 2704 UGAAUAGAACAGGCUAAG 3739 Rh [2495-2512] 3′UTR 129 GUAAUGAUAAGGAGAAUC 2705 GAUUCUCCUUAUCAUUAC 3740 [2347-2364] 3′UTR 130 GGACGAGUGCCUCUGGAU 2706 AUCCAGAGGCACUCGUCC 3741 Rh, Rb, Cw [808-825] ORF 131 CACAAUAAAUAGUGGCAA 2707 UUGCCACUAUUUAUUGUG 3742 [3237-3254] 3′UTR 132 GUUGGAGGAAAGAAGGAA 2708 UUCCUUCUUUCCUCCAAC 3743 Rt [611-628] ORF 133 AGGUAUUAGACUUGCACU 2709 AGUGCAAGUCUAAUACCU 3744 [2912-2929] 3′UTR 134 ACACAAGAGUUGUUGAAA 2710 UUUCAACAACUCUUGUGU 3745 [3544-3561] 3′UTR 135 CCUAUGUGUUCCCUCAGU 2711 ACUGAGGGAACACAUAGG 3746 [2277-2294] 3′UTR 136 CAAUGCAGAUGUAGUGAU 2712 AUCACUACAUCUGCAUUG 3747 [418-435] ORF 137 GAAUAUGAAGUCUGAGAC 2713 GUCUCAGACUUCAUAUUC 3748 [3509-3526] 3′UTR 138 CCUCCAAGGGUUUCGACU 2714 AGUCGAAACCCUUGGAGG 3749 Rh [1004-1021] 3′UTR 139 GUGGUUUCCUGAAGCCAG 2715 CUGGCUUCAGGAAACCAC 3750 [2295-2312] 3′UTR 140 UGUUCUAUUCAGCGGCAA 2716 UUGCCGCUGAAUAGAACA 3751 [2502-2519] 3′UTR 141 GAUGAUAGGUGAACCUGA 2717 UCAGGUUCACCUAUCAUC 3752 [2177-2194] 3′UTR 142 GCCUCAGCUGAGUCUUUU 2718 AAAAGACUCAGCUGAGGC 3753 Rh [1658-1675] 3′UTR 143 AGGUGAAUUCUCAGAUGA 2719 UCAUCUGAGAAUUCACCU 3754 [2164-2181] 3′UTR 144 AGGGAGACGUGGGUCCAA 2720 UUGGACCCACGUCUCCCU 3755 [1138-1155] 3′UTR 145 AGAAGGAAGUGGACUCUG 2721 CAGAGUCCACUUCCUUCU 3756 [456-473] ORF 146 GGAAGCCGCUCAAAUACC 2722 GGUAUUUGAGCGGCUUCC 3757 [3217-3234] 3′UTR 147 GCUGUACAGUGACCUAAA 2723 UUUAGGUCACUGUACAGC 3758 [2673-2690] 3′UTR 148 GGAUAGGAAGAACUUUCU 2724 AGAAAGUUCUUCCUAUCC 3759 [2327-2344] 3′UTR 149 CCCUUCUCCUUUUAGACA 2725 UGUCUAAAAGGAGAAGGG 3760 [1105-1122] 3′UTR 150 CCACCUUAGCCUGUUCUA 2726 UAGAACAGGCUAAGGUGG 3761 Rh [2491-2508] 3′UTR 151 GGGCUUCGAUCCUUGGGU 2727 ACCCAAGGAUCGAAGCCC 3762 Rh [1198-1215] 3′UTR 152 AGUGUUCCCUCCCUCAAA 2728 UUUGAGGGAGGGAACACU 3763 [1969-1986] 3′UTR 153 GAACUUUCUCGGUAAUGA 2729 UCAUUACCGAGAAAGUUC 3764 [2336-2353] 3′UTR 154 GAGAAGGAAGUGGACUCU 2730 AGAGUCCACUUCCUUCUC 3765 [455-472] ORF 155 CAUCAAUCCUAUUAAUCC 2731 GGAUUAAUAGGAUUGAUG 3766 Rh [1565-1582] 3′UTR 156 GCAGGAGUUUCUCGACAU 2732 AUGUCGAGAAACUCCUGC 3767 Ck, Dg [934-951] ORF 157 GGGUUAGGAUAGGAAGAA 2733 UUCUUCCUAUCCUAACCC 3768 [2321-2338] 3′UTR 158 CUGAUGCUUUGUAUCAUU 2734 AAUGAUACAAAGCAUCAG 3769 [3587-3604] 3′UTR 159 CAGCCUCAGCUGAGUCUU 2735 AAGACUCAGCUGAGGCUG 3770 Rh [1656-1673] 3′UTR 160 GGCCUGUUUUAAGAGACA 2736 UGUCUCUUAAAACAGGCC 3771 Rh [2132-2149] 3′UTR 161 CAUACACACGCAAUGAAA 2737 UUUCAUUGCGUGUGUAUG 3772 Rh [2427-2444] 3′UTR 162 GCACCACCCAGAAGAAGA 2738 UCUUCUUCUGGGUGGUGC 3773 Rh, Pg [711-728] ORF 163 CUCUGAUGCUUUGUAUCA 2739 UGAUACAAAGCAUCAGAG 3774 [3585-3602] 3′UTR 164 GGGCUUUCUGCAUGUGAC 2740 GUCACAUGCAGAAAGCCC 3775 [2011-2028] 3′UTR 165 CUCUGGAAACGACAUUUA 2741 UAAAUGUCGUUUCCAGAG 3776 Rh [469-486] ORF 166 GAUUGAGUUGCACAGCUU 2742 AAGCUGUGCAACUCAAUC 3777 [1854-1871] 3′UTR 167 GUCAGUGAGAAGGAAGUG 2743 CACUUCCUUCUCACUGAC 3778 [449-466] ORF 168 CCAGCUUGCAGGAGGAAU 2744 AUUCCUCCUGCAAGCUGG 3779 [1723-1740] 3′UTR 169 CCCUGUUCGCUUCCUGUA 2745 UACAGGAAGCGAACAGGG 3780 [2777-2794] 3′UTR 170 CAUGGGUCCAAAUUAAUA 2746 UAUUAAUUUGGACCCAUG 3781 [1074-1091] 3′UTR 171 CUCUGUUGAUUUUGUUUC 2747 GAAACAAAAUCAACAGAG 3782 [3450-3467] 3′UTR 172 GGAAGGAUUUUGGAGGUA 2748 UACCUCCAAAAUCCUUCC 3783 Rh [2065-2082] 3′UTR 173 GGAACUAGGGAACCUAUG 2749 CAUAGGUUCCCUAGUUCC 3784 Rh [2265-2282] 3′UTR 174 CCUGGAUUGAGUUGCACA 2750 UGUGCAACUCAAUCCAGG 3785 [1850-1867] 3′UTR 175 GCCUGGAAAUGUGCAUUU 2751 AAAUGCACAUUUCCAGGC 3786 Rh [1322-1339] 3′UTR 176 GGCCAAAGCGGUCAGUGA 2752 UCACUGACCGCUUUGGCC 3787 [439-456] ORF 177 ACUUCUGCUUGUAUUUCU 2753 AGAAAUACAAGCAGAAGU 3788 Rh [2210-2227] 3′UTR 178 CCCUUUCUAGGGCAGACU 2754 AGUCUGCCCUAGAAAGGG 3789 Rh [2610-2627] 3′UTR 179 CCUGGUCAGCACAGAUCU 2755 AGAUCUGUGCUGACCAGG 3790 Rh [2583-2600] 3′UTR 180 GGGUCCAAGGUCCUCAUC 2756 GAUGAGGACCUUGGACCC 3791 [1148-1165] 3′UTR 181 CUGUAUGGUGAUAUCAUA 2757 UAUGAUAUCACCAUACAG 3792 [2790-2807] 3′UTR 182 UGGACUUGCUGCCGUAAU 2758 AUUACGGCAGCAAGUCCA 3793 [3426-3443] 3′UTR 183 CCUGUUCGCUUCCUGUAU 2759 AUACAGGAAGCGAACAGG 3794 [2778-2795] 3′UTR 184 GUGACACACUCACUUCUU 2760 AAGAAGUGAGUGUGUCAC 3795 [2093-2110] 3′UTR 185 GGUGGAUUCCUUCAGGUC 2761 GACCUGAAGGAAUCCACC 3796 Rh [2995-3012] 3′UTR 186 CCCAUCAAUCCUAUUAAU 2762 AUUAAUAGGAUUGAUGGG 3797 Rh [1563-1580] 3′UTR 187 GCUAGUUCUUGAAGGAGC 2763 GCUCCUUCAAGAACUAGC 3798 [1545-1562] 3′UTR 188 GUGGGUCCAAGGUCCUCA 2764 UGAGGACCUUGGACCCAC 3799 [1146-1163] 3′UTR 189 GCUUCCAAAGCCACCUUA 2765 UAAGGUGGCUUUGGAAGC 3800 Rh [2481-2498] 3′UTR 190 GGUCACAGAGAAGAACAU 2766 AUGUUCUUCUCUGUGACC 3801 Rh [832-849] ORF 191 GCAUCAAGAGAAGUGACG 2767 CGUCACUUCUCUUGAUGC 3802 [879-896] ORF 192 UGGUCUUGCAAAAUGCUU 2768 AAGCAUUUUGCAAGACCA 3803 [2467-2484] 3′UTR 193 AGCAGGAGUUUCUCGACA 2769 UGUCGAGAAACUCCUGCU 3804 Ck, Dg [933-950] ORF 194 GUUGAAAGUUGACAAGCA 2770 UGCUUGUCAACUUUCAAC 3805 [3555-3572] 3′UTR 195 GGUCUUGCAAAAUGCUUC 2771 GAAGCAUUUUGCAAGACC 3806 [2468-2485] 3′UTR 196 GUGUUUAUGCUGGAAUAU 2772 AUAUUCCAGCAUAAACAC 3807 [3497-3514] 3′UTR 197 GCAGAAAACAAAACAGGU 2773 ACCUGUUUUGUUUUCUGC 3808 [3171-3188] 3′UTR 198 ACCUAAAGUUGGUAAGAU 2774 AUCUUACCAACUUUAGGU 3809 [2684-2701] 3′UTR 199 AGCAGACUGCGCAUGUCU 2775 AGACAUGCGCAGUCUGCU 3810 [3569-3586] 3′UTR 200 AGCCUGUUCUAUUCAGCG 2776 CGCUGAAUAGAACAGGCU 3811 [2498-2515] 3′UTR 201 GGCAGCACUUAGGGAUCU 2777 AGAUCCCUAAGUGCUGCC 3812 Rh [1284-1301] 3′UTR 202 CAUUUAUGGCAACCCUAU 2778 AUAGGGUUGCCAUAAAUG 3813 [481-498] ORF 203 GGCUCUCCAUUUGGCAUC 2779 GAUGCCAAAUGGAGAGCC 3814 [3274-3291] 3′UTR 204 UGUUUCUGCUGAUUGUUU 2780 AAACAAUCAGCAGAAACA 3815 [2823-2840] 3′UTR 205 GCUGCGAGUGCAAGAUCA 2781 UGAUCUUGCACUCGCAGC 3816 Rt [753-770] ORF 206 CUUUCUCGGUAAUGAUAA 2782 UUAUCAUUACCGAGAAAG 3817 [2339-2356] 3′UTR 207 GUUUCCGUUUGGAUUUUU 2783 AAAAAUCCAAACGGAAAC 3818 [3463-3480] 3′UTR 208 GGGCUGCGAGUGCAAGAU 2784 AUCUUGCACUCGCAGCCC 3819 Ck, Rb, Rt [751-768] ORF 209 CCUGAGUUGCAGAUAUAC 2785 GUAUAUCUGCAACUCAGG 3820 Rh [2190-2207] 3′UTR 210 GUUUCCUGAAGCCAGUGA 2786 UCACUGGCUUCAGGAAAC 3821 [2298-2315] 3′UTR 211 GGAUUUUGGAGGUAGGUG 2787 CACCUACCUCCAAAAUCC 3822 Rh [2069-2086] 3′UTR 212 GCAAAAAAAGCCUCCAAG 2788 CUUGGAGGCUUUUUUUGC 3823 [994-1011] 3′UTR 213 CCAAGUUCUUCGCCUGCA 2789 UGCAGGCGAAGAACUUGG 3824 Rh, Rb, Cw, Dg, Ms [864-881] ORF 214 GUUCCCUCAGUGUGGUUU 2790 AAACCACACUGAGGGAAC 3825 [2284-2301] 3′UTR 215 GGAGCACUGUGUUUAUGC 2791 GCAUAAACACAGUGCUCC 3826 [3489-3506] 3′UTR 216 UAAGAAGGCUCUCCAUUU 2792 AAAUGGAGAGCCUUCUUA 3827 [3268-3285] 3′UTR 217 GCGUUUUCAUGCUGUACA 2793 UGUACAGCAUGAAAACGC 3828 Rh [2663-2680] 3′UTR 218 GGUUCGGUCUGAAAGGUG 2794 CACCUUUCAGACCGAACC 3829 [3106-3123] 3′UTR 219 GAUUACCUAGCUAAGAAA 2795 UUUCUUAGCUAGGUAAUC 3830 [2239-2256] 3′UTR 220 CUUUCAUCUUGAGAGGGA 2796 UCCCUCUCAAGAUGAAAG 3831 [1393-1410] 3′UTR 221 AGGGCAGCCUGGAACCAG 2797 CUGGUUCCAGGCUGCCCU 3832 [1525-1542] 3′UTR 222 GGGACACGCGGCUUCCCU 2798 AGGGAAGCCGCGUGUCCC 3833 [1228-1245] 3′UTR 223 CCUAGGAAGGGAAGGAUU 2799 AAUCCUUCCCUUCCUAGG 3834 Rh [2056-2073] 3′UTR 224 CCAAGGGCAGCCUGGAAC 2800 GUUCCAGGCUGCCCUUGG 3835 [1522-1539] 3′UTR 225 AUAUGAAGUCUGAGACCU 2801 AGGUCUCAGACUUCAUAU 3836 [3511-3528] 3′UTR 226 GGACUCUGGAAACGACAU 2802 AUGUCGUUUCCAGAGUCC 3837 Rh [466-483] ORF 227 CCUGAAGCCAGUGAUAUG 2803 CAUAUCACUGGCUUCAGG 3838 [2302-2319] 3′UTR 228 GGACUUGCUGCCGUAAUU 2804 AAUUACGGCAGCAAGUCC 3839 [3427-3444] 3′UTR 229 ACGGCAAGAUGCACAUCA 2805 UGAUGUGCAUCUUGCCGU 3840 Dg, Pg [657-674] ORF 230 CAAGAGUUGUUGAAAGUU 2806 AACUUUCAACAACUCUUG 3841 [3547-3564] 3′UTR 231 GGUCAGCACAGAUCUUGA 2807 UCAAGAUCUGUGCUGACC 3842 Rh [2586-2603] 3′UTR 232 AGGGAACUAGGGAACCUA 2808 UAGGUUCCCUAGUUCCCU 3843 Rh [2263-2280] 3′UTR 233 CGGACGAGUGCCUCUGGA 2809 UCCAGAGGCACUCGUCCG 3844 Rh, Rb, Cw [807-824] ORF 234 CUCCAGUUCAAAUUAUUG 2810 CAAUAAUUUGAACUGGAG 3845 [3066-3083] 3′UTR 235 CAUGGUUGUGGGUCUGGA 2811 UCCAGACCCACAACCAUG 3846 [1121-1138] 3′UTR 236 AGGUGAACCUGAGUUGCA 2812 UGCAACUCAGGUUCACCU 3847 Rh [2183-2200] 3′UTR 237 GGUGAGGUCCUGUCCUGA 2813 UCAGGACAGGACCUCACC 3848 Rh [1742-1759] 3′UTR 238 CAGUGUGGUUUCCUGAAG 2814 CUUCAGGAAACCACACUG 3849 [2291-2308] 3′UTR 239 GAAGAAGAGCCUGAACCA 2815 UGGUUCAGGCUCUUCUUC 3850 Rh, Rb, Cw, Ms, Pg [721-738] ORF 240 GGUAGGUGGCUUUGGUGA 2816 UCACCAAAGCCACCUACC 3851 Rh [2079-2096] 3′UTR 241 CCCUCAAGGUCCCUUCCC 2817 GGGAAGGGACCUUGAGGG 3852 [1785-1802] 3′UTR 242 UCGCCUGCAUCAAGAGAA 2818 UUCUCUUGAUGCAGGCGA 3853 Rh, Cw, Dg, Ms [873-890] ORF 243 AGCAUUUGACCCAGAGUG 2819 CACUCUGGGUCAAAUGCU 3854 [2959-2976] 3′UTR 244 GGGUCUUGCUGUGCCCUC 2820 GAGGGCACAGCAAGACCC 3855 Rh [1943-1960] 3′UTR 245 GCCUCCUGCUGCUGGCGA 2821 UCGCCAGCAGCAGGAGGC 3856 Dg [339-356] ORF 246 CAGGCUUAGUGUUCCCUC 2822 GAGGGAACACUAAGCCUG 3857 [1962-1979] 3′UTR 247 CCAGAAGAAGAGCCUGAA 2823 UUCAGGCUCUUCUUCUGG 3858 Rh, Rb, Cw, Ms, Pg [718-735] ORF 248 GACCCAGAGUGGAACGCG 2824 CGCGUUCCACUCUGGGUC 3859 [2966-2983] 3′UTR 249 AGGUGUGGCCUUUAUAUU 2825 AAUAUAAAGGCCACACCU 3860 [3119-3136] 3′UTR 250 CAGUGGGAGCCUCCCUCU 2826 AGAGGGAGGCUCCCACUG 3861 Rh [1592-1609] 3′UTR 251 UGGUUCUCCAGUUCAAAU 2827 AUUUGAACUGGAGAACCA 3862 [3061-3078] 3′UTR 252 GGUUAAGAAGAGCCGGGU 2828 ACCCGGCUCUUCUUAACC 3863 [3186-3203] 3′UTR 253 AAGGAGAAUCUCUUGUUU 2829 AAACAAGAGAUUCUCCUU 3864 [2355-2372] 3′UTR 254 UCUGAUGCUUUGUAUCAU 2830 AUGAUACAAAGCAUCAGA 3865 [3586-3603] 3′UTR 255 CCAGGUCCCUUUCAUCUU 2831 AAGAUGAAAGGGACCUGG 3866 Rh [1385-1402] 3′UTR 256 CACCCUCUGUGACUUCAU 2832 AUGAAGUCACAGAGGGUG 3867 Rh, Cw, Ms [673-690] ORF 257 CCCUUGGUAGGUAUUAGA 2833 UCUAAUACCUACCAAGGG 3868 [2904-2921] 3′UTR 258 CUAUGUGUUCCCUCAGUG 2834 CACUGAGGGAACACAUAG 3869 [2278-2295] 3′UTR 259 GAGCCUGAACCACAGGUA 2835 UACCUGUGGUUCAGGCUC 3870 Rh, Rb, Cw, Ms, Pg [727-744] ORF 260 GGCAAGUGCUCCCAUCGC 2836 GCGAUGGGAGCACUUGCC 3871 [1460-1477] 3′UTR 261 GAAUUCCAGUGGGAGCCU 2837 AGGCUCCCACUGGAAUUC 3872 Rh [1586-1603] 3′UTR 262 GCAAUGCAGAUGUAGUGA 2838 UCACUACAUCUGCAUUGC 3873 [417-434] ORF 263 CCUGAGAAGGAUAUAGAG 2839 CUCUAUAUCCUUCUCAGG 3874 [545-562] ORF 264 ACCUGAGUUGCAGAUAUA 2840 UAUAUCUGCAACUCAGGU 3875 Rh [2189-2206] 3′UTR 265 GACCUAAAGUUGGUAAGA 2841 UCUUACCAACUUUAGGUC 3876 [2683-2700] 3′UTR 266 GUCUUUGGUUCUCCAGUU 2842 AACUGGAGAACCAAAGAC 3877 [3056-3073] 3′UTR 267 GCCUAGGAAGGGAAGGAU 2843 AUCCUUCCCUUCCUAGGC 3878 Rh [2055-2072] 3′UTR 268 CGCAUGUCUCUGAUGCUU 2844 AAGCAUCAGAGACAUGCG 3879 [3578-3595] 3′UTR 269 CAAUCCUAUUAAUCCUCA 2845 UGAGGAUUAAUAGGAUUG 3880 Rh [1568-1585] 3′UTR 270 AGCCUCAGCUGAGUCUUU 2846 AAAGACUCAGCUGAGGCU 3881 Rh [1657-1674] 3′UTR 271 GCUCUGUUGAUUUUGUUU 2847 AAACAAAAUCAACAGAGC 3882 [3449-3466] 3′UTR 272 GUGGGAGCCUCCCUCUGA 2848 UCAGAGGGAGGCUCCCAC 3883 Rh [1594-1611] 3′UTR 273 GACUCUGGAAACGACAUU 2849 AAUGUCGUUUCCAGAGUC 3884 Rh [467-484] ORF 274 AGCAUAGUAAGAAGUCCA 2850 UGGACUUCUUACUAUGCU 3885 [2037-2054] 3′UTR 275 CAGAGGAAGCCGCUCAAA 2851 UUUGAGCGGCUUCCUCUG 3886 [3213-3230] 3′UTR 276 GUUGGUAAGAUGUCAUAA 2852 UUAUGACAUCUUACCAAC 3887 Rh [2691-2708] 3′UTR 277 CUAUUUUCAUCCUGCAAG 2853 CUUGCAGGAUGAAAAUAG 3888 [3333-3350] 3′UTR 278 AGUUGCAGAUAUACCAAC 2854 GUUGGUAUAUCUGCAACU 3889 Rh [2194-2211] 3′UTR 279 AAUGAUAAGGAGAAUCUC 2855 GAGAUUCUCCUUAUCAUU 3890 [2349-2366] 3′UTR 280 GGAGAAUCUCUUGUUUCC 2856 GGAAACAAGAGAUUCUCC 3891 [2357-2374] 3′UTR 281 GUAAGAUGUCAUAAUGGA 2857 UCCAUUAUGACAUCUUAC 3892 Rh [2695-2712] 3′UTR 282 CCUUGGUAGGUAUUAGAC 2858 GUCUAAUACCUACCAAGG 3893 [2905-2922] 3′UTR 283 GGCUGGGACACGCGGCUU 2859 AAGCCGCGUGUCCCAGCC 3894 [1224-1241] 3′UTR 284 CACAAGAGUUGUUGAAAG 2860 CUUUCAACAACUCUUGUG 3895 [3545-3562] 3′UTR 285 GAGGGUCGUUGCAAGACU 2861 AGUCUUGCAACGACCCUC 3896 [1353-1370] 3′UTR 286 AAACGACAUUUAUGGCAA 2862 UUGCCAUAAAUGUCGUUU 3897 [475-492] ORF 287 UGAUGACUUCCCUUUCUA 2863 UAGAAAGGGAAGUCAUCA 3898 Rh [2601-2618] 3′UTR 288 GGCUUAGUGUUCCCUCCC 2864 GGGAGGGAACACUAAGCC 3899 [1964-1981] 3′UTR 289 CAGAGAAGAACAUCAACG 2865 CGUUGAUGUUCUUCUCUG 3900 Rh [837-854] ORF 290 CCAGCCUCAGCUGAGUCU 2866 AGACUCAGCUGAGGCUGG 3901 Rh [1655-1672] 3′UTR 291 GGGACACCCUGAGCACCA 2867 UGGUGCUCAGGGUGUCCC 3902 Rh, Pg [699-716] ORF 292 CUCACUUCUUUCUCAGCC 2868 GGCUGAGAAAGAAGUGAG 3903 [2101-2118] 3′UTR 293 GACAUCCCUUCCUGGAAA 2869 UUUCCAGGAAGGGAUGUC 3904 Rh, Rt, Ms [1033-1050] 3′UTR 294 CCUGGCAAGUGCUCCCAU 2870 AUGGGAGCACUUGCCAGG 3905 [1457-1474] 3′UTR 295 AGAAAUGGGAGCGAGAAA 2871 UUUCUCGCUCCCAUUUCU 3906 [1619-1636] 3′UTR 296 GCAAUGAAACCGAAGCUU 2872 AAGCUUCGGUUUCAUUGC 3907 [2436-2453] 3′UTR 297 AUGUCAUAAUGGACCAGU 2873 ACUGGUCCAUUAUGACAU 3908 Rh [2700-2717] 3′UTR 298 UGUGGUUUCCUGAAGCCA 2874 UGGCUUCAGGAAACCACA 3909 [2294-2311] 3′UTR 299 GAUAUACAGGCACAUUAU 2875 AUAAUGUGCCUGUAUAUC 3910 [2404-2421] 3′UTR 300 AAAAAAGCCUCCAAGGGU 2876 ACCCUUGGAGGCUUUUUU 3911 [997-1014] 3′UTR 301 GUAUGGUGAUAUCAUAUG 2877 CAUAUGAUAUCACCAUAC 3912 [2792-2809] 3′UTR 302 CCUGUGCUGUGUUUUUUA 2878 UAAAAAACACAGCACAGG 3913 Rh [2883-2900] 3′UTR 303 AGGCCAAGUUCUUCGCCU 2879 AGGCGAAGAACUUGGCCU 3914 Rh, Rb, Cw, Dg, Ms [861-878] ORF 304 UGCAGAUAUACCAACUUC 2880 GAAGUUGGUAUAUCUGCA 3915 Rh [2197-2214] 3′UTR 305 AGAAGGAAUAUCUCAUUG 2881 CAAUGAGAUAUUCCUUCU 3916 [621-638] ORF 306 GAAGGAUUUUGGAGGUAG 2882 CUACCUCCAAAAUCCUUC 3917 Rh [2066-2083] 3′UTR 307 GCGGCUUCCCUCCCAGUC 2883 GACUGGGAGGGAAGCCGC 3918 [1235-1252] 3′UTR 308 CUCAGAAUUCCAGUGGGA 2884 UCCCACUGGAAUUCUGAG 3919 Rh [1582-1599] 3′UTR 309 GAUGGACUGGGUCACAGA 2885 UCUGUGACCCAGUCCAUC 3920 Rh, Rt, Ms, Pg [823-840] ORF 310 AUAUCUCAUUGCAGGAAA 2886 UUUCCUGCAAUGAGAUAU 3921 [628-645] ORF 311 ACAUUUAUGGCAACCCUA 2887 UAGGGUUGCCAUAAAUGU 3922 [480-497] ORF 312 UUAAGAAGGCUCUCCAUU 2888 AAUGGAGAGCCUUCUUAA 3923 [3267-3284] 3′UTR 313 GCAAAAUGCUUCCAAAGC 2889 GCUUUGGAAGCAUUUUGC 3924 Rh [2474-2491] 3′UTR 314 CUCCCUCAAAGACUGACA 2890 UGUCAGUCUUUGAGGGAG 3925 Rh [1977-1994] 3′UTR 315 GCCUCUGGAUGGACUGGG 2891 CCCAGUCCAUCCAGAGGC 3926 Rh, Rb, Cw, Dg, Rt, Ms [816-833] ORF 316 CGUUGGUCUUUUAACCGU 2892 ACGGUUAAAAGACCAACG 3927 [3148-3165] 3′UTR 317 AGGAAUAUCUCAUUGCAG 2893 CUGCAAUGAGAUAUUCCU 3928 [624-641] ORF 318 GAGUUUAUCUACACGGCC 2894 GGCCGUGUAGAUAAACUC 3929 Ms, Pg [560-577] ORF 319 UUUUCAUCCUGCAAGCAA 2895 UUGCUUGCAGGAUGAAAA 3930 [3336-3353] 3′UTR 320 CAAAGCGGUCAGUGAGAA 2896 UUCUCACUGACCGCUUUG 3931 [442-459] ORF 321 GUUUCUGCUGAUUGUUUU 2897 AAAACAAUCAGCAGAAAC 3932 [2824-2841] 3′UTR 322 AAAGGUGAAUUCUCAGAU 2898 AUCUGAGAAUUCACCUUU 3933 [2162-2179] 3′UTR 323 GAGUGCCUCUGGAUGGAC 2899 GUCCAUCCAGAGGCACUC 3934 Rh, Rb, Cw, Dg, Rt, Ms [812-829] ORF 324 CAAAGAUUACCUAGCUAA 2900 UUAGCUAGGUAAUCUUUG 3935 [2235-2252] 3′UTR 325 CCAGCUCUGACAUCCCUU 2901 AAGGGAUGUCAGAGCUGG 3936 Rh [1025-1042] 3′UTR 326 GUUCUUCGCCUGCAUCAA 2902 UUGAUGCAGGCGAAGAAC 3937 Rh, Rb, Cw, Dg, Ms [868-885] ORF 327 GGCUCCUGUGCGUGGUAC 2903 GUACCACGCACAGGAGCC 3938 Rh [896-913] ORF 328 UAGACAUGGUUGUGGGUC 2904 GACCCACAACCAUGUCUA 3939 [1117-1134] 3′UTR 329 AGAAGUCCAGCCUAGGAA 2905 UUCCUAGGCUGGACUUCU 3940 Rh [2046-2063] 3′UTR 330 GCAAGACUGUGUAGCAGG 2906 CCUGCUACACAGUCUUGC 3941 Rh [1363-1380] 3′UTR 331 GCUCUCUUCUCCUAUUUU 2907 AAAAUAGGAGAAGAGAGC 3942 [3322-3339] 3′UTR 332 GGCAAGAUGCACAUCACC 2908 GGUGAUGUGCAUCUUGCC 3943 Rh, Dg [659-676] ORF 333 GAAGAACUUUCUCGGUAA 2909 UUACCGAGAAAGUUCUUC 3944 Rh [2333-2350] 3′UTR 334 AGAGUUGUUGAAAGUUGA 2910 UCAACUUUCAACAACUCU 3945 [3549-3566] 3′UTR 335 GUAUAUACAACUCCACCA 2911 UGGUGGAGUUGUAUAUAC 3946 Rh [2731-2748] 3′UTR 336 GCUUAGUGUUCCCUCCCU 2912 AGGGAGGGAACACUAAGC 3947 [1965-1982] 3′UTR 337 GCUCUGACAUCCCUUCCU 2913 AGGAAGGGAUGUCAGAGC 3948 Rh [1028-1045] 3′UTR 338 CCCAUGGGUCCAAAUUAA 2914 UUAAUUUGGACCCAUGGG 3949 [1072-1089] 3′UTR 339 UGGCCAACUGCAAAAAAA 2915 UUUUUUUGCAGUUGGCCA 3950 [985-1002] 3′UTR 340 GGACACUAUGGCCUGUUU 2916 AAACAGGCCAUAGUGUCC 3951 [2123-2140] 3′UTR 341 GCCAGCUAAGCAUAGUAA 2917 UUACUAUGCUUAGCUGGC 3952 [2029-2046] 3′UTR 342 CCAAGGGUUUCGACUGGU 2918 ACCAGUCGAAACCCUUGG 3953 Rh [1007-1024] 3′UTR 343 AGAUGCACAUCACCCUCU 2919 AGAGGGUGAUGUGCAUCU 3954 Rh [663-680] ORF 344 GGCAGGGCCUGGAAAUGU 2920 ACAUUUCCAGGCCCUGCC 3955 [1316-1333] 3′UTR 345 GGUCCUCAUCCCAUCCUC 2921 GAGGAUGGGAUGAGGACC 3956 Rh [1156-1173] 3′UTR 346 CGACAUUUAUGGCAACCC 2922 GGGUUGCCAUAAAUGUCG 3957 [478-495] ORF 347 GCCUUGUAGAAAUGGGAG 2923 CUCCCAUUUCUACAAGGC 3958 Rh [1612-1629] 3′UTR 348 CAGUCCAUGUGAUUUCAG 2924 CUGAAAUCACAUGGACUG 3959 Rh [2714-2731] 3′UTR 349 GGAGACGUGGGUCCAAGG 2925 CCUUGGACCCACGUCUCC 3960 [1140-1157] 3′UTR 350 CAGCUUUGCUUUAUCCGG 2926 CCGGAUAAAGCAAAGCUG 3961 [1866-1883] 3′UTR 351 UGCAAGCAACUCAAAAUA 2927 UAUUUUGAGUUGCUUGCA 3962 [3345-3362] 3′UTR 352 CCUUUCUAGGGCAGACUG 2928 CAGUCUGCCCUAGAAAGG 3963 Rh [2611-2628] 3′UTR 353 CCUGGAAAUGUGCAUUUU 2929 AAAAUGCACAUUUCCAGG 3964 Rh [1323-1340] 3′UTR 354 AUGGCAACCCUAUCAAGA 2930 UCUUGAUAGGGUUGCCAU 3965 [486-503] ORF 355 GCCAUUGCUUCUUGCCUG 2931 CAGGCAAGAAGCAAUGGC 3966 [1817-1834] 3′UTR 356 GGAACCUAUGUGUUCCCU 2932 AGGGAACACAUAGGUUCC 3967 Rh [2273-2290] 3′UTR 357 GAUAUACCAACUUCUGCU 2933 AGCAGAAGUUGGUAUAUC 3968 Rh [2201-2218] 3′UTR 358 GUUUGUUUUUGACAUCAG 2934 CUGAUGUCAAAAACAAAC 3969 [2854-2871] 3′UTR 359 UGCACAGCUUUGCUUUAU 2935 AUAAAGCAAAGCUGUGCA 3970 [1862-1879] 3′UTR 360 CCUAUUUUCAUCCUGCAA 2936 UUGCAGGAUGAAAAUAGG 3971 [3332-3349] 3′UTR 361 UGCCAUUGCUUCUUGCCU 2937 AGGCAAGAAGCAAUGGCA 3972 [1816-1833] 3′UTR 362 ACCAACUUCUGCUUGUAU 2938 AUACAAGCAGAAGUUGGU 3973 Rh [2206-2223] 3′UTR 363 GGUCCUGUCCUGAGGCUG 2939 CAGCCUCAGGACAGGACC 3974 Rh [1747-1764] 3′UTR 364 AUGCAGAUGUAGUGAUCA 2940 UGAUCACUACAUCUGCAU 3975 [420-437] ORF 365 GCUAAGCAUAGUAAGAAG 2941 CUUCUUACUAUGCUUAGC 3976 [2033-2050] 3′UTR 366 GUUCCCUCCCUCAAAGAC 2942 GUCUUUGAGGGAGGGAAC 3977 [1972-1989] 3′UTR 367 AGCUGUAAUCAUUCCUGU 2943 ACAGGAAUGAUUACAGCU 3978 [2870-2887] 3′UTR 368 GCAUGUGACGCCAGCUAA 2944 UUAGCUGGCGUCACAUGC 3979 [2020-2037] 3′UTR 369 GCACAGCUUUGCUUUAUC 2945 GAUAAAGCAAAGCUGUGC 3980 [1863-1880] 3′UTR 370 GAGCCUCCCUCUGAGCCU 2946 AGGCUCAGAGGGAGGCUC 3981 Rh [1598-1615] 3′UTR 371 GGCACCAGGCCAAGUUCU 2947 AGAACUUGGCCUGGUGCC 3982 Rh, Rb, Rt, Ms [855-872] ORF 372 CAGCACAGAUCUUGAUGA 2948 UCAUCAAGAUCUGUGCUG 3983 Rh [2589-2606] 3′UTR 373 UGUUCUAAGCACAGCUCU 2949 AGAGCUGUGCUUAGAACA 3984 [3309-3326] 3′UTR 374 UGAGCAGAAAACAAAACA 2950 UGUUUUGUUUUCUGCUCA 3985 [3168-3185] 3′UTR 375 GGGAACACACAAGAGUUG 2951 CAACUCUUGUGUGUUCCC 3986 [3538-3555] 3′UTR 376 CCCUCAAAGACUGACAGC 2952 GCUGUCAGUCUUUGAGGG 3987 Rh [1979-1996] 3′UTR 377 CCUUGUUUUCUGCAGCUU 2953 AAGCUGCAGAAAACAAGG 3988 Rh [1417-1434] 3′UTR 378 CUGGAAACGACAUUUAUG 2954 CAUAAAUGUCGUUUCCAG 3989 [471-488] ORF 379 GCAAGAUGCACAUCACCC 2955 GGGUGAUGUGCAUCUUGC 3990 Rh, Dg [660-677] ORF 380 UCAGAAUUCCAGUGGGAG 2956 CUCCCACUGGAAUUCUGA 3991 Rh [1583-1600] 3′UTR 381 UGUUGAUUUUGUUUCCGU 2957 ACGGAAACAAAAUCAACA 3992 [3453-3470] 3′UTR 382 UGCUGGAAUAUGAAGUCU 2958 AGACUUCAUAUUCCAGCA 3993 Ms [3504-3521] 3′UTR 383 GUUGUUGAAAGUUGACAA 2959 UUGUCAACUUUCAACAAC 3994 [3552-3569] 3′UTR 384 GGUCGUUGCAAGACUGUG 2960 CACAGUCUUGCAACGACC 3995 [1356-1373] 3′UTR 385 GUAGGUAUUAGACUUGCA 2961 UGCAAGUCUAAUACCUAC 3996 [2910-2927] 3′UTR 386 CUUUGUAUCAUUCUUGAG 2962 CUCAAGAAUGAUACAAAG 3997 [3593-3610] 3′UTR 387 GGGAGCACUGUGUUUAUG 2963 CAUAAACACAGUGCUCCC 3998 [3488-3505] 3′UTR 388 UGUCUCUGAUGCUUUGUA 2964 UACAAAGCAUCAGAGACA 3999 [3582-3599] 3′UTR 389 GUUCCAGCCUCAGCUGAG 2965 CUCAGCUGAGGCUGGAAC 4000 [1652-1669] 3′UTR 390 GGUUAGGAUAGGAAGAAC 2966 GUUCUUCCUAUCCUAACC 4001 [2322-2339] 3′UTR 391 AUAUACAACUCCACCAGA 2967 UCUGGUGGAGUUGUAUAU 4002 Rh [2733-2750] 3′UTR 392 UCUGAGCCUUGUAGAAAU 2968 AUUUCUACAAGGCUCAGA 4003 Rh [1607-1624] 3′UTR 393 GUGAGGUCCUGUCCUGAG 2969 CUCAGGACAGGACCUCAC 4004 Rh [1743-1760] 3′UTR 394 GGGUGGCAGCUGACAGAG 2970 CUCUGUCAGCUGCCACCC 4005 [3200-3217] 3′UTR 395 CAAGCAGACUGCGCAUGU 2971 ACAUGCGCAGUCUGCUUG 4006 [3567-3584] 3′UTR 396 CUCCCUCUGAGCCUUGUA 2972 UACAAGGCUCAGAGGGAG 4007 Rh [1602-1619] 3′UTR 397 GGAGGUAGGUGGCUUUGG 2973 CCAAAGCCACCUACCUCC 4008 Rh [2076-2093] 3′UTR 398 GAGCAGAAAACAAAACAG 2974 CUGUUUUGUUUUCUGCUC 4009 [3169-3186] 3′UTR 399 AGAAGGCUCUCCAUUUGG 2975 CCAAAUGGAGAGCCUUCU 4010 [3270-3287] 3′UTR 400 UAUGAAGUCUGAGACCUU 2976 AAGGUCUCAGACUUCAUA 4011 [3512-3529] 3′UTR 401 AACAUUUACUCCUGUUUC 2977 GAAACAGGAGUAAAUGUU 4012 Rh [2811-2828] 3′UTR 402 GACGAGUGCCUCUGGAUG 2978 CAUCCAGAGGCACUCGUC 4013 Rh, Rb, Cw [809-826] ORF 403 CUGGGUCACAGAGAAGAA 2979 UUCUUCUCUGUGACCCAG 4014 Rh [829-846] ORF 404 CUAGGAAGGGAAGGAUUU 2980 AAAUCCUUCCCUUCCUAG 4015 Rh [2057-2074] 3′UTR 405 CGGCUUCCCUCCCAGUCC 2981 GGACUGGGAGGGAAGCCG 4016 [1236-1253] 3′UTR 406 CCAGUGGGAGCCUCCCUC 2982 GAGGGAGGCUCCCACUGG 4017 Rh [1591-1608] 3′UTR 407 GAGUUUCUCGACAUCGAG 2983 CUCGAUGUCGAGAAACUC 4018 Ck, Dg [938-955] ORF 408 AGAAGAGCCGGGUGGCAG 2984 CUGCCACCCGGCUCUUCU 4019 [3191-3208] 3′UTR 409 ACAUCAGCUGUAAUCAUU 2985 AAUGAUUACAGCUGAUGU 4020 [2865-2882] 3′UTR 410 CUCAGAUGAUAGGUGAAC 2986 GUUCACCUAUCAUCUGAG 4021 [2173-2190] 3′UTR 411 GCAGGUGGAUUCCUUCAG 2987 CUGAAGGAAUCCACCUGC 4022 Rh [2992-3009] 3′UTR 412 GCGCAUGUCUCUGAUGCU 2988 AGCAUCAGAGACAUGCGC 4023 [3577-3594] 3′UTR 413 CAGUAUAUACAACUCCAC 2989 GUGGAGUUGUAUAUACUG 4024 Rh [2729-2746] 3′UTR 414 CAUUCUUGAGCAAUCGCU 2990 AGCGAUUGCUCAAGAAUG 4025 [3601-3618] 3′UTR 415 CCUCCUCGGCAGUGUGUG 2991 CACACACUGCCGAGGAGG 4026 [579-596] ORF 416 UCCUGUUUCUGCUGAUUG 2992 CAAUCAGCAGAAACAGGA 4027 [2820-2837] 3′UTR 417 CCCUCCUCGGCAGUGUGU 2993 ACACACUGCCGAGGAGGG 4028 [578-595] ORF 418 UACCCUUGGUAGGUAUUA 2994 UAAUACCUACCAAGGGUA 4029 [2902-2919] 3′UTR 419 GCUUCCUGUAUGGUGAUA 2995 UAUCACCAUACAGGAAGC 4030 [2785-2802] 3′UTR 420 GGACAUGGCCCUUGUUUU 2996 AAAACAAGGGCCAUGUCC 4031 [1408-1425] 3′UTR 421 GCAUGAAUAAAACACUCA 2997 UGAGUGUUUUAUUCAUGC 4032 Rh [1053-1070] 3′UTR 422 CCUGUUUCUGCUGAUUGU 2998 ACAAUCAGCAGAAACAGG 4033 [2821-2838] 3′UTR 423 GCACAUCACCCUCUGUGA 2999 UCACAGAGGGUGAUGUGC 4034 Rh [667-684] ORF 424 GCCGCUCAAAUACCUUCA 3000 UGAAGGUAUUUGAGCGGC 4035 [3221-3238] 3′UTR 425 GCAACAGGCGUUUUGCAA 3001 UUGCAAAACGCCUGUUGC 4036 Cw, Rt, Ms [403-420] ORF 426 GGGACGGCAAGAUGCACA 3002 UGUGCAUCUUGCCGUCCC 4037 [654-671] ORF 427 GCCAGGCACUAUGUGUCU 3003 AGACACAUAGUGCCUGGC 4038 [1179-1196] 3′UTR 428 GACACACUCACUUCUUUC 3004 GAAAGAAGUGAGUGUGUC 4039 [2095-2112] 3′UTR 429 CUGAGACCUUCCGGUGCU 3005 AGCACCGGAAGGUCUCAG 4040 [3520-3537] 3′UTR 430 CAGAAGAAGAGCCUGAAC 3006 GUUCAGGCUCUUCUUCUG 4041 Rh, Rb, Cw, Ms, Pg [719-736] ORF 431 GAUAGGUGAACCUGAGUU 3007 AACUCAGGUUCACCUAUC 4042 [2180-2197] 3′UTR 432 GUUCUAUUCAGCGGCAAC 3008 GUUGCCGCUGAAUAGAAC 4043 [2503-2520] 3′UTR 433 AGACUGGGAGGGUAUCCA 3009 UGGAUACCCUCCCAGUCU 4044 Rh [2623-2640] 3′UTR 434 GGCCAACUGCAAAAAAAG 3010 CUUUUUUUGCAGUUGGCC 4045 [986-1003] 3′UTR 435 UGGCCUUUAUAUUUGAUC 3011 GAUCAAAUAUAAAGGCCA 4046 [3124-3141] 3′UTR 436 GCUGGGAACACACAAGAG 3012 CUCUUGUGUGUUCCCAGC 4047 [3535-3552] 3′UTR 437 GUGGAAGCAUUUGACCCA 3013 UGGGUCAAAUGCUUCCAC 4048 [2954-2971] 3′UTR 438 CCAUGAUCCCGUGCUACA 3014 UGUAGCACGGGAUCAUGG 4049 Rh, Rb [780-797] ORF 439 CAGGCAGCACUUAGGGAU 3015 AUCCCUAAGUGCUGCCUG 4050 Rh [1282-1299] 3′UTR 440 GCAAAGUAAAGGAUCUUU 3016 AAAGAUCCUUUACUUUGC 4051 [3083-3100] 3′UTR 441 GUGGACAAUAAACAGUAU 3017 AUACUGUUUAUUGUCCAC 4052 [3625-3642] 3′UTR 442 UGCAAAAAAAGCCUCCAA 3018 UUGGAGGCUUUUUUUGCA 4053 [993-1010] 3′UTR 443 CAAGCAGGAGUUUCUCGA 3019 UCGAGAAACUCCUGCUUG 4054 Ck, Dg [931-948] ORF 444 CGUUCCAGCCUCAGCUGA 3020 UCAGCUGAGGCUGGAACG 4055 [1651-1668] 3′UTR 445 CGGUCCGUGGACAAUAAA 3021 UUUAUUGUCCACGGACCG 4056 [3619-3636] 3′UTR 446 UAGGAUAGGAAGAACUUU 3022 AAAGUUCUUCCUAUCCUA 4057 [2325-2342] 3′UTR 447 AGCUGAGUCUUUUUGGUC 3023 GACCAAAAAGACUCAGCU 4058 Rh [1663-1680] 3′UTR 448 UGGCUUUGGUGACACACU 3024 AGUGUGUCACCAAAGCCA 4059 [2085-2102] 3′UTR 449 GCCGGUGGCUGCCCUCAA 3025 UUGAGGGCAGCCACCGGC 4060 Rh [1774-1791] 3′UTR 450 CCUGGAACCAGUGGCUAG 3026 CUAGCCACUGGUUCCAGG 4061 [1532-1549] 3′UTR 451 GCCUGUUCUGGCAUCAGG 3027 CCUGAUGCCAGAACAGGC 4062 [1830-1847] 3′UTR 452 GACAGAAAAAGCUGGGUC 3028 GACCCAGCUUUUUCUGUC 4063 Rh [1930-1947] 3′UTR 453 CAGCCUCCAGGACACUAU 3029 AUAGUGUCCUGGAGGCUG 4064 [2114-2131] 3′UTR 454 GAAGCAUUUGACCCAGAG 3030 CUCUGGGUCAAAUGCUUC 4065 [2957-2974] 3′UTR 455 GGCAUCAGGCACCUGGAU 3031 AUCCAGGUGCCUGAUGCC 4066 [1839-1856] 3′UTR 456 AGGAUAGGAAGAACUUUC 3032 GAAAGUUCUUCCUAUCCU 4067 [2326-2343] 3′UTR 457 AGUGCAAGAUCACGCGCU 3033 AGCGCGUGAUCUUGCACU 4068 Dg, Pg [759-776] ORF 458 CUUCGAUCCUUGGGUGCA 3034 UGCACCCAAGGAUCGAAG 4069 Rh [1201-1218] 3′UTR 459 GUAAAGGAUCUUUGAGUA 3035 UACUCAAAGAUCCUUUAC 4070 [3088-3105] 3′UTR 460 CAGGCACCUGGAUUGAGU 3036 ACUCAAUCCAGGUGCCUG 4071 Rh [1844-1861] 3′UTR 461 AUAAGGAGAAUCUCUUGU 3037 ACAAGAGAUUCUCCUUAU 4072 [2353-2370] 3′UTR 462 UUCCCUCCCUCAAAGACU 3038 AGUCUUUGAGGGAGGGAA 4073 [1973-1990] 3′UTR 463 UCUGGAAACGACAUUUAU 3039 AUAAAUGUCGUUUCCAGA 4074 [470-487] ORF 464 GUAAGAAGUCCAGCCUAG 3040 CUAGGCUGGACUUCUUAC 4075 Rh [2043-2060] 3′UTR 465 CAAAACAGGUUAAGAAGA 3041 UCUUCUUAACCUGUUUUG 4076 [3179-3196] 3′UTR 466 GGUUGCCAUUGCUUCUUG 3042 CAAGAAGCAAUGGCAACC 4077 Rh [1813-1830] 3′UTR 467 AGGUCCUCAUCCCAUCCU 3043 AGGAUGGGAUGAGGACCU 4078 Rh [1155-1172] 3′UTR 468 GUCCGUGGACAAUAAACA 3044 UGUUUAUUGUCCACGGAC 4079 [3621-3638] 3′UTR 469 UGUGUUUAUGCUGGAAUA 3045 UAUUCCAGCAUAAACACA 4080 [3496-3513] 3′UTR 470 GGGCGUUUUCAUGCUGUA 3046 UACAGCAUGAAAACGCCC 4081 Rh [2661-2678] 3′UTR 471 GGCACCUGGAUUGAGUUG 3047 CAACUCAAUCCAGGUGCC 4082 [1846-1863] 3′UTR 472 CUGUAAUCAUUCCUGUGC 3048 GCACAGGAAUGAUUACAG 4083 Rh [2872-2889] 3′UTR 473 GGCCUGGAAAUGUGCAUU 3049 AAUGCACAUUUCCAGGCC 4084 Rh [1321-1338] 3′UTR 474 GGGUCGUUGCAAGACUGU 3050 ACAGUCUUGCAACGACCC 4085 [1355-1372] 3′UTR 475 CAGGCGUUUUGCAAUGCA 3051 UGCAUUGCAAAACGCCUG 4086 Cw, Rt, Ms [407-424] ORF 476 AGGGUAUCCAGGAAUCGG 3052 CCGAUUCCUGGAUACCCU 4087 [2631-2648] 3′UTR 477 CUGGAAAUGUGCAUUUUG 3053 CAAAAUGCACAUUUCCAG 4088 Rh [1324-1341] 3′UTR 478 GGUGGCUGCCCUCAAGGU 3054 ACCUUGAGGGCAGCCACC 4089 Rh [1777-1794] 3′UTR 479 GGUCCAGCUCUGACAUCC 3055 GGAUGUCAGAGCUGGACC 4090 Rh [1022-1039] 3′UTR 480 GCGGCCUGGGCGUGGUCU 3056 AGACCACGCCCAGGCCGC 4091 [2455-2472] 3′UTR 481 UGCAUUUUGCAGAAACUU 3057 AAGUUUCUGCAAAAUGCA 4092 Rh [1333-1350] 3′UTR 482 GUCUUUUAACCGUGCUGA 3058 UCAGCACGGUUAAAAGAC 4093 [3153-3170] 3′UTR 483 CUCAAGGUCCCUUCCCUA 3059 UAGGGAAGGGACCUUGAG 4094 [1787-1804] 3′UTR 484 AUCCAGUAUGAGAUCAAG 3060 CUUGAUCUCAUACUGGAU 4095 Rh, Rb [506-523] ORF 485 GUCUGAAAGGUGUGGCCU 3061 AGGCCACACCUUUCAGAC 4096 [3112-3129] 3′UTR 486 GACGUUGGAGGAAAGAAG 3062 CUUCUUUCCUCCAACGUC 4097 Rt, Ms [608-625] ORF 487 CUUGUUUCCUCCCACCUG 3063 CAGGUGGGAGGAAACAAG 4098 [2366-2383] 3′UTR 488 GACCUGGUCAGCACAGAU 3064 AUCUGUGCUGACCAGGUC 4099 Rh [2581-2598] 3′UTR 489 GUUGCAGAUAUACCAACU 3065 AGUUGGUAUAUCUGCAAC 4100 Rh [2195-2212] 3′UTR 490 CCACACACGUUGGUCUUU 3066 AAAGACCAACGUGUGUGG 4101 [3141-3158] 3′UTR 491 CCCUCUGUGACUUCAUCG 3067 CGAUGAAGUCACAGAGGG 4102 Rh, Cw [675-692] ORF 492 GAUCCUUGGGUGCAGGCA 3068 UGCCUGCACCCAAGGAUC 4103 Rh [1205-1222] 3′UTR 493 CAAUGAAACCGAAGCUUG 3069 CAAGCUUCGGUUUCAUUG 4104 [2437-2454] 3′UTR 494 AGCCUUGUAGAAAUGGGA 3070 UCCCAUUUCUACAAGGCU 4105 Rh [1611-1628] 3′UTR 495 CUGUUCGCUUCCUGUAUG 3071 CAUACAGGAAGCGAACAG 4106 [2779-2796] 3′UTR 496 AUGUGUUCCCUCAGUGUG 3072 CACACUGAGGGAACACAU 4107 [2280-2297] 3′UTR 497 CCAAGCAGGCAGCACUUA 3073 UAAGUGCUGCCUGCUUGG 4108 [1277-1294] 3′UTR 498 GCGAGUGCAAGAUCACGC 3074 GCGUGAUCUUGCACUCGC 4109 [756-773] ORF 499 AUAGUUUAAGAAGGCUCU 3075 AGAGCCUUCUUAAACUAU 4110 [3262-3279] 3′UTR 500 CAGACUGCGCAUGUCUCU 3076 AGAGACAUGCGCAGUCUG 4111 [3571-3588] 3′UTR 501 CCUGUUUUAAGAGACAUC 3077 GAUGUCUCUUAAAACAGG 4112 Rh [2134-2151] 3′UTR 502 UCAGUAUAUACAACUCCA 3078 UGGAGUUGUAUAUACUGA 4113 Rh [2728-2745] 3′UTR 503 CGGCAAGAUGCACAUCAC 3079 GUGAUGUGCAUCUUGCCG 4114 Rh, Ck, Dg, Pg [658-675] ORF 504 CAUCAGCUGUAAUCAUUC 3080 GAAUGAUUACAGCUGAUG 4115 [2866-2883] 3′UTR 505 GCACCUGUUAAGACUCCU 3081 AGGAGUCUUAACAGGUGC 4116 Rh [2527-2544] 3′UTR 506 GUCUGAGACCUUCCGGUG 3082 CACCGGAAGGUCUCAGAC 4117 [3518-3535] 3′UTR 507 CUUCUUUCUCAGCCUCCA 3083 UGGAGGCUGAGAAAGAAG 4118 [2105-2122] 3′UTR 508 GAUAAGGAGAAUCUCUUG 3084 CAAGAGAUUCUCCUUAUC 4119 [2352-2369] 3′UTR 509 AGAUAUACCAACUUCUGC 3085 GCAGAAGUUGGUAUAUCU 4120 Rh [2200-2217] 3′UTR 510 CUAUGCAGGUGGAUUCCU 3086 AGGAAUCCACCUGCAUAG 4121 Rh [2988-3005] 3′UTR 511 AGGAAGCCGCUCAAAUAC 3087 GUAUUUGAGCGGCUUCCU 4122 [3216-3233] 3′UTR 512 CGUGCUACAUCUCCUCCC 3088 GGGAGGAGAUGUAGCACG 4123 Rh [789-806] ORF 513 AAAAAAGGUUUCUGCAUC 3089 GAUGCAGAAACCUUUUUU 4124 [2936-2953] 3′UTR 514 GGACACGCGGCUUCCCUC 3090 GAGGGAAGCCGCGUGUCC 4125 [1229-1246] 3′UTR 515 UAGAGUUUAUCUACACGG 3091 CCGUGUAGAUAAACUCUA 4126 Dg, Pg [558-575] ORF 516 UCAAAGACUGACAGCCAU 3092 AUGGCUGUCAGUCUUUGA 4127 Rh [1982-1999] 3′UTR 517 UGACAUCAGCUGUAAUCA 3093 UGAUUACAGCUGAUGUCA 4128 [2863-2880] 3′UTR 518 AGUUGCACAGCUUUGCUU 3094 AAGCAAAGCUGUGCAACU 4129 [1859-1876] 3′UTR 519 AGUGGCUAGUUCUUGAAG 3095 CUUCAAGAACUAGCCACU 4130 [1541-1558] 3′UTR 520 UGGCAACCCUAUCAAGAG 3096 CUCUUGAUAGGGUUGCCA 4131 [487-504] ORF 521 GUGGCUGCCCUCAAGGUC 3097 GACCUUGAGGGCAGCCAC 4132 Rh [1778-1795] 3′UTR 522 GCGUUUUGCAAUGCAGAU 3098 AUCUGCAUUGCAAAACGC 4133 [410-427] ORF 523 GAUCAAGCAGAUAAAGAU 3099 AUCUUUAUCUGCUUGAUC 4134 Cw, Dg, Rt, Ms, Pg [517-534] ORF 524 GCAGGCAGCACUUAGGGA 3100 UCCCUAAGUGCUGCCUGC 4135 Rh [1281-1298] 3′UTR 525 CUCCAACCCAUAUAACAC 3101 GUGUUAUAUGGGUUGGAG 4136 [2754-2771] 3′UTR 526 GAACUAGGGAACCUAUGU 3102 ACAUAGGUUCCCUAGUUC 4137 Rh [2266-2283] 3′UTR 527 GACGAUAUACAGGCACAU 3103 AUGUGCCUGUAUAUCGUC 4138 [2401-2418] 3′UTR 528 GAAAUAUUGGACUUGCUG 3104 CAGCAAGUCCAAUAUUUC 4139 [3419-3436] 3′UTR 529 GAAGCCGCUCAAAUACCU 3105 AGGUAUUUGAGCGGCUUC 4140 [3218-3235] 3′UTR 530 GGCAGCCUGGAACCAGUG 3106 CACUGGUUCCAGGCUGCC 4141 [1527-1544] 3′UTR 531 GUCUGGAGGGAGACGUGG 3107 CCACGUCUCCCUCCAGAC 4142 [1132-1149] 3′UTR 532 CAUAGUAAGAAGUCCAGC 3108 GCUGGACUUCUUACUAUG 4143 [2039-2056] 3′UTR 533 CUCCUGUUUCUGCUGAUU 3109 AAUCAGCAGAAACAGGAG 4144 [2819-2836] 3′UTR 534 CAGAAUUCCAGUGGGAGC 3110 GCUCCCACUGGAAUUCUG 4145 Rh [1584-1601] 3′UTR 535 AGCACUGUGUUUAUGCUG 3111 CAGCAUAAACACAGUGCU 4146 [3491-3508] 3′UTR 536 GUAACAUUUACUCCUGUU 3112 AACAGGAGUAAAUGUUAC 4147 Rh [2809-2826] 3′UTR 537 UGAGCUGCGUUCCAGCCU 3113 AGGCUGGAACGCAGCUCA 4148 [1644-1661] 3′UTR 538 AGGUGGAUUCCUUCAGGU 3114 ACCUGAAGGAAUCCACCU 4149 Rh [2994-3011] 3′UTR 539 UUUGUUUCCGUUUGGAUU 3115 AAUCCAAACGGAAACAAA 4150 [3460-3477] 3′UTR 540 AAAGGAUCUUUGAGUAGG 3116 CCUACUCAAAGAUCCUUU 4151 [3090-3107] 3′UTR 541 GGUCUGGAGGGAGACGUG 3117 CACGUCUCCCUCCAGACC 4152 [1131-1148] 3′UTR 542 UGAGAUCAAGCAGAUAAA 3118 UUUAUCUGCUUGAUCUCA 4153 Rh, Cw, Dg, Rt, Ms [514-531] ORF 543 GGAGGGUAUCCAGGAAUC 3119 GAUUCCUGGAUACCCUCC 4154 [2629-2646] 3′UTR 544 GAGUUGCACAGCUUUGCU 3120 AGCAAAGCUGUGCAACUC 4155 [1858-1875] 3′UTR 545 CCUUCACAAUAAAUAGUG 3121 CACUAUUUAUUGUGAAGG 4156 [3233-3250] 3′UTR 546 CUUGUUUUCUGCAGCUUC 3122 GAAGCUGCAGAAAACAAG 4157 Rh [1418-1435] 3′UTR 547 AUUGAGUUGCACAGCUUU 3123 AAAGCUGUGCAACUCAAU 4158 [1855-1872] 3′UTR 548 UGAUUUUGUUUCCGUUUG 3124 CAAACGGAAACAAAAUCA 4159 [3456-3473] 3′UTR 549 CAGCUCUCUUCUCCUAUU 3125 AAUAGGAGAAGAGAGCUG 4160 [3320-3337] 3′UTR 550 GGCCUACCAGGUCCCUUU 3126 AAAGGGACCUGGUAGGCC 4161 Rh [1379-1396] 3′UTR 551 UGUUAUGUUCUAAGCACA 3127 UGUGCUUAGAACAUAACA 4162 [3304-3321] 3′UTR 552 GAGCCGGGUGGCAGCUGA 3128 UCAGCUGCCACCCGGCUC 4163 [3195-3212] 3′UTR 553 GGAGGAAUCGGUGAGGUC 3129 GACCUCACCGAUUCCUCC 4164 [1733-1750] 3′UTR 554 CCUGGGACACCCUGAGCA 3130 UGCUCAGGGUGUCCCAGG 4165 Rh, Dg, Pg [696-713] ORF 555 UGUGCAUUUUGCAGAAAC 3131 GUUUCUGCAAAAUGCACA 4166 Rh, Rt, Ms [1331-1348] 3′UTR 556 CCCUCUGCCAGGCACUAU 3132 AUAGUGCCUGGCAGAGGG 4167 [1173-1190] 3′UTR 557 AGUCUGAGACCUUCCGGU 3133 ACCGGAAGGUCUCAGACU 4168 [3517-3534] 3′UTR 558 CAACUUCUGCUUGUAUUU 3134 AAAUACAAGCAGAAGUUG 4169 Rh [2208-2225] 3′UTR 559 CAGCCUGGAACCAGUGGC 3135 GCCACUGGUUCCAGGCUG 4170 [1529-1546] 3′UTR 560 GCUUUGGUGACACACUCA 3136 UGAGUGUGUCACCAAAGC 4171 [2087-2104] 3′UTR 561 CGCCUGCAUCAAGAGAAG 3137 CUUCUCUUGAUGCAGGCG 4172 Rh, Cw, Dg, Rt, Ms [874-891] ORF 562 CUCCAAGGGUUUCGACUG 3138 CAGUCGAAACCCUUGGAG 4173 Rh [1005-1022] 3′UTR 563 UGCUGGGAACACACAAGA 3139 UCUUGUGUGUUCCCAGCA 4174 [3534-3551] 3′UTR 564 ACAUUUACUCCUGUUUCU 3140 AGAAACAGGAGUAAAUGU 4175 Rh [2812-2829] 3′UTR 565 GGUUUCGACUGGUCCAGC 3141 GCUGGACCAGUCGAAACC 4176 Rh [1012-1029] 3′UTR 566 CAGCUGUAAUCAUUCCUG 3142 CAGGAAUGAUUACAGCUG 4177 [2869-2886] 3′UTR 567 CCAUCUGCACAUCCUGAG 3143 CUCAGGAUGUGCAGAUGG 4178 Rh [1912-1929] 3′UTR 568 CAUCCCAUGGGUCCAAAU 3144 AUUUGGACCCAUGGGAUG 4179 [1069-1086] 3′UTR 569 CUGUUUCUGCUGAUUGUU 3145 AACAAUCAGCAGAAACAG 4180 [2822-2839] 3′UTR 570 GUGGCUUUGGUGACACAC 3146 GUGUGUCACCAAAGCCAC 4181 [2084-2101] 3′UTR 571 GGCAGCUGACAGAGGAAG 3147 CUUCCUCUGUCAGCUGCC 4182 [3204-3221] 3′UTR 572 AGAUCUUGAUGACUUCCC 3148 GGGAAGUCAUCAAGAUCU 4183 Rh [2595-2612] 3′UTR 573 UGCAAGACUGUGUAGCAG 3149 CUGCUACACAGUCUUGCA 4184 Rh [1362-1379] 3′UTR 574 CAGAUGUAGUGAUCAGGG 3150 CCCUGAUCACUACAUCUG 4185 [423-440] ORF 575 CAUUUGGCAUCGUUUAAU 3151 AUUAAACGAUGCCAAAUG 4186 [3281-3298] 3′UTR 576 CAGAAAAAGCUGGGUCUU 3152 AAGACCCAGCUUUUUCUG 4187 Rh [1932-1949] 3′UTR 577 CCCAGAGUGGAACGCGUG 3153 CACGCGUUCCACUCUGGG 4188 [2968-2985] 3′UTR 578 ACCUGUUAAGACUCCUGA 3154 UCAGGAGUCUUAACAGGU 4189 Rh [2529-2546] 3′UTR 579 CAUCACCCUCUGUGACUU 3155 AAGUCACAGAGGGUGAUG 4190 Rh, Cw [670-687] ORF 580 GGCUUCGAUCCUUGGGUG 3156 CACCCAAGGAUCGAAGCC 4191 Rh [1199-1216] 3′UTR 581 CCUUGGCACCGUCACAGA 3157 UCUGUGACGGUGCCAAGG 4192 Rh [1257-1274] 3′UTR 582 CAAGAGAAGUGACGGCUC 3158 GAGCCGUCACUUCUCUUG 4193 [883-900] ORF 583 AGCUCUCUUCUCCUAUUU 3159 AAAUAGGAGAAGAGAGCU 4194 [3321-3338] 3′UTR 584 GCAGCCUGGAACCAGUGG 3160 CCACUGGUUCCAGGCUGC 4195 [1528-1545] 3′UTR 585 UGGACUCUGGAAACGACA 3161 UGUCGUUUCCAGAGUCCA 4196 Rh [465-482] ORF 586 CACUCACUUCUUUCUCAG 3162 CUGAGAAAGAAGUGAGUG 4197 [2099-2116] 3′UTR 587 ACCGUGCUGAGCAGAAAA 3163 UUUUCUGCUCAGCACGGU 4198 [3161-3178] 3′UTR 588 AGAAUCUCUUGUUUCCUC 3164 GAGGAAACAAGAGAUUCU 4199 [2359-2376] 3′UTR 589 ACAGCUCUCUUCUCCUAU 3165 AUAGGAGAAGAGAGCUGU 4200 [3319-3336] 3′UTR 590 UCCUCAGAAUUCCAGUGG 3166 CCACUGGAAUUCUGAGGA 4201 Rh [1580-1597] 3′UTR 591 GGCCCUUGUUUUCUGCAG 3167 CUGCAGAAAACAAGGGCC 4202 Rh [1414-1431] 3′UTR 592 GUGGGUCUGGAGGGAGAC 3168 GUCUCCCUCCAGACCCAC 4203 Rh [1128-1145] 3′UTR 593 AUCUCUUGUUUCCUCCCA 3169 UGGGAGGAAACAAGAGAU 4204 [2362-2379] 3′UTR 594 GAACCACAGGUACCAGAU 3170 AUCUGGUACCUGUGGUUC 4205 Rh, Rb, Cw, Rt, Ms, Pg [733-750] ORF 595 GCCUCCAAGGGUUUCGAC 3171 GUCGAAACCCUUGGAGGC 4206 Rh [1003-1020] 3′UTR 596 CAGCAUGAAUAAAACACU 3172 AGUGUUUUAUUCAUGCUG 4207 Rh [1051-1068] 3′UTR 597 CACCCAGAAGAAGAGCCU 3173 AGGCUCUUCUUCUGGGUG 4208 Rh, Ck, Cw, Rt, Ms, Pg [715-732] ORF 598 UCAUAAUGGACCAGUCCA 3174 UGGACUGGUCCAUUAUGA 4209 Rh [2703-2720] 3′UTR 599 ACAUCACCCUCUGUGACU 3175 AGUCACAGAGGGUGAUGU 4210 Rh [669-686] ORF 600 CCUUCCUGGAAACAGCAU 3176 AUGCUGUUUCCAGGAAGG 4211 Rh, Rb, Rt, Ms [1039-1056] 3′UTR 601 AGCCUCCAAGGGUUUCGA 3177 UCGAAACCCUUGGAGGCU 4212 Rh [1002-1019] 3′UTR 602 UGACACACUCACUUCUUU 3178 AAAGAAGUGAGUGUGUCA 4213 [2094-2111] 3′UTR 603 UGUGGGUCUGGAGGGAGA 3179 UCUCCCUCCAGACCCACA 4214 Rh [1127-1144] 3′UTR 604 AGGCUCUCCAUUUGGCAU 3180 AUGCCAAAUGGAGAGCCU 4215 [3273-3290] 3′UTR 605 CCAGUCCAUGUGAUUUCA 3181 UGAAAUCACAUGGACUGG 4216 Rh [2713-2730] 3′UTR 606 GACGUGGGUCCAAGGUCC 3182 GGACCUUGGACCCACGUC 4217 [1143-1160] 3′UTR 607 GGACAGAAAAAGCUGGGU 3183 ACCCAGCUUUUUCUGUCC 4218 Rh [1929-1946] 3′UTR 608 CUACCAGGUCCCUUUCAU 3184 AUGAAAGGGACCUGGUAG 4219 Rh [1382-1399] 3′UTR 609 AAUCCUCAGAAUUCCAGU 3185 ACUGGAAUUCUGAGGAUU 4220 Rh [1578-1595] 3′UTR 610 CUUUGAGUAGGUUCGGUC 3186 GACCGAACCUACUCAAAG 4221 [3097-3114] 3′UTR 611 GCCGGGUGGCAGCUGACA 3187 UGUCAGCUGCCACCCGGC 4222 [3197-3214] 3′UTR 612 GCAGAAACUUUUGAGGGU 3188 ACCCUCAAAAGUUUCUGC 4223 Rh [1341-1358] 3′UTR 613 CAGUGGCUAGUUCUUGAA 3189 UUCAAGAACUAGCCACUG 4224 [1540-1557] 3′UTR 614 GAAAUGGGAGCGAGAAAC 3190 GUUUCUCGCUCCCAUUUC 4225 [1620-1637] 3′UTR 615 GCAGACUGCGCAUGUCUC 3191 GAGACAUGCGCAGUCUGC 4226 [3570-3587] 3′UTR 616 UGUAAUCAUUCCUGUGCU 3192 AGCACAGGAAUGAUUACA 4227 Rh [2873-2890] 3′UTR 617 UGGUAGGUAUUAGACUUG 3193 CAAGUCUAAUACCUACCA 4228 [2908-2925] 3′UTR 618 CAUUUACUCCUGUUUCUG 3194 CAGAAACAGGAGUAAAUG 4229 Rh [2813-2830] 3′UTR 619 AUGAAGUCUGAGACCUUC 3195 GAAGGUCUCAGACUUCAU 4230 [3513-3530] 3′UTR 620 CUUGAUGACUUCCCUUUC 3196 GAAAGGGAAGUCAUCAAG 4231 Rh [2599-2616] 3′UTR 621 CAACAGGCGUUUUGCAAU 3197 AUUGCAAAACGCCUGUUG 4232 Cw, Rt, Ms [404-421] ORF 622 CCAUAAGCAGGCCUCCAA 3198 UUGGAGGCCUGCUUAUGG 4233 [959-976] ORF + 3′UTR 623 GUACAGUGACCUAAAGUU 3199 AACUUUAGGUCACUGUAC 4234 [2676-2693] 3′UTR 624 GCAUAGUAAGAAGUCCAG 3200 CUGGACUUCUUACUAUGC 4235 [2038-2055] 3′UTR 625 ACACUCACUUCUUUCUCA 3201 UGAGAAAGAAGUGAGUGU 4236 [2098-2115] 3′UTR 626 AUCAAGAGGAUCCAGUAU 3202 AUACUGGAUCCUCUUGAU 4237 Rh, Rb [497-514] ORF 627 AGUGAGAAGGAAGUGGAC 3203 GUCCACUUCCUUCUCACU 4238 [452-469] ORF 628 GCCUAUGCAGGUGGAUUC 3204 GAAUCCACCUGCAUAGGC 4239 Rh [2986-3003] 3′UTR 629 CACCGUCACAGAUGCCAA 3205 UUGGCAUCUGUGACGGUG 4240 [1263-1280] 3′UTR 630 CUUUCUAGGGCAGACUGG 3206 CCAGUCUGCCCUAGAAAG 4241 Rh [2612-2629] 3′UTR 631 CCCUCCCUCAAAGACUGA 3207 UCAGUCUUUGAGGGAGGG 4242 [1975-1992] 3′UTR 632 CUAAGCAUAGUAAGAAGU 3208 ACUUCUUACUAUGCUUAG 4243 [2034-2051] 3′UTR 633 CAGAUAUACCAACUUCUG 3209 CAGAAGUUGGUAUAUCUG 4244 Rh [2199-2216] 3′UTR 634 UUGCAGAUAUACCAACUU 3210 AAGUUGGUAUAUCUGCAA 4245 Rh [2196-2213] 3′UTR 635 GCCUCCCUCUGAGCCUUG 3211 CAAGGCUCAGAGGGAGGC 4246 Rh [1600-1617] 3′UTR 636 GGAAAUGUGCAUUUUGCA 3212 UGCAAAAUGCACAUUUCC 4247 Rh [1326-1343] 3′UTR 637 CUCCCAGGCUUAGUGUUC 3213 GAACACUAAGCCUGGGAG 4248 [1958-1975] 3′UTR 638 CUUUGGUGACACACUCAC 3214 GUGAGUGUGUCACCAAAG 4249 [2088-2105] 3′UTR 639 CAUCAAGAGAAGUGACGG 3215 CCGUCACUUCUCUUGAUG 4250 [880-897] ORF 640 CAGCCAUCGUUCUGCACG 3216 CGUGCAGAACGAUGGCUG 4251 Rh [1993-2010] 3′UTR 641 CAAAGACUGACAGCCAUC 3217 GAUGGCUGUCAGUCUUUG 4252 Rh [1983-2000] 3′UTR 642 AGCAGAAAACAAAACAGG 3218 CCUGUUUUGUUUUCUGCU 4253 [3170-3187] 3′UTR 643 GCACUUAGGGAUCUCCCA 3219 UGGGAGAUCCCUAAGUGC 4254 Rh [1288-1305] 3′UTR 644 UGGACCAGUCCAUGUGAU 3220 AUCACAUGGACUGGUCCA 4255 Rh [2709-2726] 3′UTR 645 AUGUGCAUUUUGCAGAAA 3221 UUUCUGCAAAAUGCACAU 4256 Rh, Ms [1330-1347] 3′UTR 646 UGUAACAUUUACUCCUGU 3222 ACAGGAGUAAAUGUUACA 4257 Rh [2808-2825] 3′UTR 647 GCUGUAAUCAUUCCUGUG 3223 CACAGGAAUGAUUACAGC 4258 Rh [2871-2888] 3′UTR 648 UAAGGAGAAUCUCUUGUU 3224 AACAAGAGAUUCUCCUUA 4259 [2354-2371] 3′UTR 649 UGACAAGCAGACUGCGCA 3225 UGCGCAGUCUGCUUGUCA 4260 [3564-3581] 3′UTR 650 UCCUGUAUGGUGAUAUCA 3226 UGAUAUCACCAUACAGGA 4261 [2788-2805] 3′UTR 651 GAUAGGAAGAACUUUCUC 3227 GAGAAAGUUCUUCCUAUC 4262 Rh [2328-2345] 3′UTR 652 CAUUCCUGUGCUGUGUUU 3228 AAACACAGCACAGGAAUG 4263 Rh [2879-2896] 3′UTR 653 CAAGGUCCCUUCCCUAGC 3229 GCUAGGGAAGGGACCUUG 4264 [1789-1806] 3′UTR 654 CCGUCUUUGGUUCUCCAG 3230 CUGGAGAACCAAAGACGG 4265 [3054-3071] 3′UTR 655 GCUUCUUGCCUGUUCUGG 3231 CCAGAACAGGCAAGAAGC 4266 [1823-1840] 3′UTR 656 UGGGCUGCGAGUGCAAGA 3232 UCUUGCACUCGCAGCCCA 4267 Ck, Rb, Rt [750-767] ORF 657 GAUGGGCUGCGAGUGCAA 3233 UUGCACUCGCAGCCCAUC 4268 Ck, Rb, Rt [748-765] ORF 658 CUGUUCUGGCAUCAGGCA 3234 UGCCUGAUGCCAGAACAG 4269 [1832-1849] 3′UTR 659 GGGUAUCCAGGAAUCGGC 3235 GCCGAUUCCUGGAUACCC 4270 [2632-2649] 3′UTR 660 GCAACCCUAUCAAGAGGA 3236 UCCUCUUGAUAGGGUUGC 4271 [489-506] ORF 661 CCCAUCUGCACAUCCUGA 3237 UCAGGAUGUGCAGAUGGG 4272 Rh [1911-1928] 3′UTR 662 UAUAGUUUAAGAAGGCUC 3238 GAGCCUUCUUAAACUAUA 4273 [3261-3278] 3′UTR 663 AGCCUGAACCACAGGUAC 3239 GUACCUGUGGUUCAGGCU 4274 Rh, Rb, Cw, Ms, Pg [728-745] ORF 664 CGUUGCAAGACUGUGUAG 3240 CUACACAGUCUUGCAACG 4275 [1359-1376] 3′UTR 665 CGUCACAGAUGCCAAGCA 3241 UGCUUGGCAUCUGUGACG 4276 [1266-1283] 3′UTR 666 UGAGAAGGAAGUGGACUC 3242 GAGUCCACUUCCUUCUCA 4277 [454-471] ORF 667 AUCCCUUCCUGGAAACAG 3243 CUGUUUCCAGGAAGGGAU 4278 Rh, Rb, Rt, Ms [1036-1053] 3′UTR 668 CAAAGCACCUGUUAAGAC 3244 GUCUUAACAGGUGCUUUG 4279 Rh [2523-2540] 3′UTR 669 AGGUCCCUUUCAUCUUGA 3245 UCAAGAUGAAAGGGACCU 4280 Rh [1387-1404] 3′UTR 670 CCUUUUAGACAUGGUUGU 3246 ACAACCAUGUCUAAAAGG 4281 [1112-1129] 3′UTR 671 AGCCUAGGAAGGGAAGGA 3247 UCCUUCCCUUCCUAGGCU 4282 Rh [2054-2071] 3′UTR 672 GCUUUAUCCGGGCUUGUG 3248 CACAAGCCCGGAUAAAGC 4283 [1873-1890] 3′UTR 673 CUCUUCUCCUAUUUUCAU 3249 AUGAAAAUAGGAGAAGAG 4284 [3325-3342] 3′UTR 674 CGUAAUUUAAAGCUCUGU 3250 ACAGAGCUUUAAAUUACG 4285 [3438-3455] 3′UTR 675 CCUAAAGUUGGUAAGAUG 3251 CAUCUUACCAACUUUAGG 4286 Rh [2685-2702] 3′UTR 676 CUGUGCUGUGUUUUUUAU 3252 AUAAAAAACACAGCACAG 4287 Rh [2884-2901] 3′UTR 677 ACCCAGAGUGGAACGCGU 3253 ACGCGUUCCACUCUGGGU 4288 [2967-2984] 3′UTR 678 GUUCUAAGCACAGCUCUC 3254 GAGAGCUGUGCUUAGAAC 4289 [3310-3327] 3′UTR 679 CUGUGUUUUUUAUUACCC 3255 GGGUAAUAAAAAACACAG 4290 Rh [2889-2906] 3′UTR 680 GGACGGCAAGAUGCACAU 3256 AUGUGCAUCUUGCCGUCC 4291 [655-672] ORF 681 GUUGAUUUUGUUUCCGUU 3257 AACGGAAACAAAAUCAAC 4292 [3454-3471] 3′UTR 682 CUCCUUUUAGACAUGGUU 3258 AACCAUGUCUAAAAGGAG 4293 [1110-1127] 3′UTR 683 UGAUGCUUUGUAUCAUUC 3259 GAAUGAUACAAAGCAUCA 4294 [3588-3605] 3′UTR 684 CUUUAUCCGGGCUUGUGU 3260 ACACAAGCCCGGAUAAAG 4295 [1874-1891] 3′UTR 685 AUAGAGUUUAUCUACACG 3261 CGUGUAGAUAAACUCUAU 4296 Dg, Pg [557-574] ORF 686 GGGAUCUCCCAGCUGGGU 3262 ACCCAGCUGGGAGAUCCC 4297 [1295-1312] 3′UTR 687 GUGAACCUGAGUUGCAGA 3263 UCUGCAACUCAGGUUCAC 4298 Rh [2185-2202] 3′UTR 688 AGUGCCUCUGGAUGGACU 3264 AGUCCAUCCAGAGGCACU 4299 Rh, Rb, Cw, Dg, Rt, Ms [813-830] ORF 689 GAAAGUUGACAAGCAGAC 3265 GUCUGCUUGUCAACUUUC 4300 [3558-3575] 3′UTR 690 UUGCAAAAUGCUUCCAAA 3266 UUUGGAAGCAUUUUGCAA 4301 Rh [2472-2489] 3′UTR 691 GUAAAGAUAAACUGACGA 3267 UCGUCAGUUUAUCUUUAC 4302 Rh [2388-2405] 3′UTR 692 CCAAAGCCACCUUAGCCU 3268 AGGCUAAGGUGGCUUUGG 4303 Rh [2485-2502] 3′UTR 693 AGAAAAAGCUGGGUCUUG 3269 CAAGACCCAGCUUUUUCU 4304 Rh [1933-1950] 3′UTR 694 CUGCCGUAAUUUAAAGCU 3270 AGCUUUAAAUUACGGCAG 4305 [3434-3451] 3′UTR 695 UCCCUUUCAUCUUGAGAG 3271 CUCUCAAGAUGAAAGGGA 4306 Rh [1390-1407] 3′UTR 696 GAUCUUGAUGACUUCCCU 3272 AGGGAAGUCAUCAAGAUC 4307 Rh [2596-2613] 3′UTR 697 UCAGUGUGGUUUCCUGAA 3273 UUCAGGAAACCACACUGA 4308 [2290-2307] 3′UTR 698 GGAGCCUCCCUCUGAGCC 3274 GGCUCAGAGGGAGGCUCC 4309 Rh [1597-1614] 3′UTR 699 UGGUAAGAUGUCAUAAUG 3275 CAUUAUGACAUCUUACCA 4310 Rh [2693-2710] 3′UTR 700 AAGCAUUUGACCCAGAGU 3276 ACUCUGGGUCAAAUGCUU 4311 [2958-2975] 3′UTR 701 AGCUAAGAAACUUCCUAG 3277 CUAGGAAGUUUCUUAGCU 4312 [2247-2264] 3′UTR 702 CAGGUUAAGAAGAGCCGG 3278 CCGGCUCUUCUUAACCUG 4313 [3184-3201] 3′UTR 703 GACUGCGCAUGUCUCUGA 3279 UCAGAGACAUGCGCAGUC 4314 [3573-3590] 3′UTR 704 GUAGGUUCGGUCUGAAAG 3280 CUUUCAGACCGAACCUAC 4315 [3103-3120] 3′UTR 705 UGAAAGUUGACAAGCAGA 3281 UCUGCUUGUCAACUUUCA 4316 [3557-3574] 3′UTR 706 AACUUCUGCUUGUAUUUC 3282 GAAAUACAAGCAGAAGUU 4317 Rh [2209-2226] 3′UTR 707 GACAAGCAGACUGCGCAU 3283 AUGCGCAGUCUGCUUGUC 4318 [3565-3582] 3′UTR 708 AAGUCUGAGACCUUCCGG 3284 CCGGAAGGUCUCAGACUU 4319 [3516-3533] 3′UTR 709 CUCUGACAUCCCUUCCUG 3285 CAGGAAGGGAUGUCAGAG 4320 Rh [1029-1046] 3′UTR 710 GUAAACAUACACACGCAA 3286 UUGCGUGUGUAUGUUUAC 4321 Rh [2422-2439] 3′UTR 711 CCUCUGGAUGGACUGGGU 3287 ACCCAGUCCAUCCAGAGG 4322 Rh, Rb, Cw, Dg, Rt, Ms, [817-834] ORF Pg 712 GAUGACUUCCCUUUCUAG 3288 CUAGAAAGGGAAGUCAUC 4323 Rh [2602-2619] 3′UTR 713 CCUACCAGGUCCCUUUCA 3289 UGAAAGGGACCUGGUAGG 4324 Rh [1381-1398] 3′UTR 714 CAAGGUCCUCAUCCCAUC 3290 GAUGGGAUGAGGACCUUG 4325 [1153-1170] 3′UTR 715 GAUCUUUGAGUAGGUUCG 3291 CGAACCUACUCAAAGAUC 4326 [3094-3111] 3′UTR 716 AGAAAUAUUGGACUUGCU 3292 AGCAAGUCCAAUAUUUCU 4327 [3418-3435] 3′UTR 717 CUGCCCUCAAGGUCCCUU 3293 AAGGGACCUUGAGGGCAG 4328 Rh [1782-1799] 3′UTR 718 CUAGGGAACCUAUGUGUU 3294 AACACAUAGGUUCCCUAG 4329 Rh [2269-2286] 3′UTR 719 CAAGCAGGCAGCACUUAG 3295 CUAAGUGCUGCCUGCUUG 4330 [1278-1295] 3′UTR 720 CCCACCGGGACCUGGUCA 3296 UGACCAGGUCCCGGUGGG 4331 [2573-2590] 3′UTR 721 GUUUCUGCAUCGUGGAAG 3297 CUUCCACGAUGCAGAAAC 4332 Rh [2943-2960] 3′UTR 722 GUGACCUAAAGUUGGUAA 3298 UUACCAACUUUAGGUCAC 4333 [2681-2698] 3′UTR 723 UGGGAACACACAAGAGUU 3299 AACUCUUGUGUGUUCCCA 4334 [3537-3554] 3′UTR 724 GAAUCGGUGAGGUCCUGU 3300 ACAGGACCUCACCGAUUC 4335 [1737-1754] 3′UTR 725 CCCUCCCAGGCUUAGUGU 3301 ACACUAAGCCUGGGAGGG 4336 [1956-1973] 3′UTR 726 CCCACAUCCAAGGGCAGC 3302 GCUGCCCUUGGAUGUGGG 4337 [1515-1532] 3′UTR 727 AGCCUCCCUCUGAGCCUU 3303 AAGGCUCAGAGGGAGGCU 4338 Rh [1599-1616] 3′UTR 728 CAUGAUCCCGUGCUACAU 3304 AUGUAGCACGGGAUCAUG 4339 Rh, Rb [781-798] ORF 729 CAUAAUGGACCAGUCCAU 3305 AUGGACUGGUCCAUUAUG 4340 Rh [2704-2721] 3′UTR 730 GUCACAGAUGCCAAGCAG 3306 CUGCUUGGCAUCUGUGAC 4341 [1267-1284] 3′UTR 731 UGCAUCAAGAGAAGUGAC 3307 GUCACUUCUCUUGAUGCA 4342 [878-895] ORF 732 GAGACCUUCCGGUGCUGG 3308 CCAGCACCGGAAGGUCUC 4343 [3522-3539] 3′UTR 733 UACCUAGCUAAGAAACUU 3309 AAGUUUCUUAGCUAGGUA 4344 Rh [2242-2259] 3′UTR 734 GCUGCGUUCCAGCCUCAG 3310 CUGAGGCUGGAACGCAGC 4345 [1647-1664] 3′UTR 735 UGGUUUCCUGAAGCCAGU 3311 ACUGGCUUCAGGAAACCA 4346 [2296-2313] 3′UTR 736 GCAGAUGUAGUGAUCAGG 3312 CCUGAUCACUACAUCUGC 4347 [422-439] ORF 737 CACCUGGAUUGAGUUGCA 3313 UGCAACUCAAUCCAGGUG 4348 [1848-1865] 3′UTR 738 UUGGUUCUCCAGUUCAAA 3314 UUUGAACUGGAGAACCAA 4349 [3060-3077] 3′UTR 739 CUUGGCACCGUCACAGAU 3315 AUCUGUGACGGUGCCAAG 4350 Rh [1258-1275] 3′UTR 740 CUUCCAAAGCCACCUUAG 3316 CUAAGGUGGCUUUGGAAG 4351 Rh [2482-2499] 3′UTR 741 GGGCCUGGAAAUGUGCAU 3317 AUGCACAUUUCCAGGCCC 4352 Rh [1320-1337] 3′UTR 742 CACGCGGCUUCCCUCCCA 3318 UGGGAGGGAAGCCGCGUG 4353 [1232-1249] 3′UTR 743 CAAGUUCUUCGCCUGCAU 3319 AUGCAGGCGAAGAACUUG 4354 Rh, Rb, Cw, Dg, Ms [865-882] ORF 744 CUGAAGCCAGUGAUAUGG 3320 CCAUAUCACUGGCUUCAG 4355 [2303-2320] 3′UTR 745 UUCUCAGCCUCCAGGACA 3321 UGUCCUGGAGGCUGAGAA 4356 [2110-2127] 3′UTR 746 UAUUACCCUUGGUAGGUA 3322 UACCUACCAAGGGUAAUA 4357 [2899-2916] 3′UTR 747 AGGAUCUUUGAGUAGGUU 3323 AACCUACUCAAAGAUCCU 4358 [3092-3109] 3′UTR 748 GGCUUCCCUCCCAGUCCC 3324 GGGACUGGGAGGGAAGCC 4359 [1237-1254] 3′UTR 749 UCUCGGUAAUGAUAAGGA 3325 UCCUUAUCAUUACCGAGA 4360 [2342-2359] 3′UTR 750 GCUUGCAGGAGGAAUCGG 3326 CCGAUUCCUCCUGCAAGC 4361 [1726-1743] 3′UTR 751 GUGGUCUUGCAAAAUGCU 3327 AGCAUUUUGCAAGACCAC 4362 [2466-2483] 3′UTR 752 CCUCAGCUGAGUCUUUUU 3328 AAAAAGACUCAGCUGAGG 4363 Rh [1659-1676] 3′UTR 753 AGAAGUGACGGCUCCUGU 3329 ACAGGAGCCGUCACUUCU 4364 [887-904] ORF 754 CGUGGUCUUGCAAAAUGC 3330 GCAUUUUGCAAGACCACG 4365 [2465-2482] 3′UTR 755 ACCGGGACCUGGUCAGCA 3331 UGCUGACCAGGUCCCGGU 4366 [2576-2593] 3′UTR 756 GAUCCACACACGUUGGUC 3332 GACCAACGUGUGUGGAUC 4367 [3138-3155] 3′UTR 757 UAUAUUUGAUCCACACAC 3333 GUGUGUGGAUCAAAUAUA 4368 [3131-3148] 3′UTR 758 ACCUAUGUGUUCCCUCAG 3334 CUGAGGGAACACAUAGGU 4369 [2276-2293] 3′UTR 759 GUUUUUUAUUACCCUUGG 3335 CCAAGGGUAAUAAAAAAC 4370 Rh [2893-2910] 3′UTR 760 GAAGUGGACUCUGGAAAC 3336 GUUUCCAGAGUCCACUUC 4371 [461-478] ORF 761 CGCGGCUUCCCUCCCAGU 3337 ACUGGGAGGGAAGCCGCG 4372 [1234-1251] 3′UTR 762 CCCUAUCAAGAGGAUCCA 3338 UGGAUCCUCUUGAUAGGG 4373 [493-510] ORF 763 CCCGGACGAGUGCCUCUG 3339 CAGAGGCACUCGUCCGGG 4374 Rh, Rb, Cw [805-822] ORF 764 CGGUUGCCAUUGCUUCUU 3340 AAGAAGCAAUGGCAACCG 4375 Rh [1812-1829] 3′UTR 765 GCUGUGUUUUUUAUUACC 3341 GGUAAUAAAAAACACAGC 4376 Rh [2888-2905] 3′UTR 766 CUUCCACGCCUCUGCACU 3342 AGUGCAGAGGCGUGGAAG 4377 [1432-1449] 3′UTR 767 GGACCCAUAAGCAGGCCU 3343 AGGCCUGCUUAUGGGUCC 4378 Rh [955-972] ORF + 3′UTR 768 CUGGCAAGUGCUCCCAUC 3344 GAUGGGAGCACUUGCCAG 4379 [1458-1475] 3′UTR 769 AAAGGUGUGGCCUUUAUA 3345 UAUAAAGGCCACACCUUU 4380 [3117-3134] 3′UTR 770 ACAGGCACAUUAUGUAAA 3346 UUUACAUAAUGUGCCUGU 4381 [2409-2426] 3′UTR 771 ACUUCCCUUUCUAGGGCA 3347 UGCCCUAGAAAGGGAAGU 4382 Rh [2606-2623] 3′UTR 772 CUGUUGAUUUUGUUUCCG 3348 CGGAAACAAAAUCAACAG 4383 [3452-3469] 3′UTR 773 CAAAGGGCCUGAGAAGGA 3349 UCCUUCUCAGGCCCUUUG 4384 [538-555] ORF 774 CCUGAGCACCACCCAGAA 3350 UUCUGGGUGGUGCUCAGG 4385 Rh, Pg [706-723] ORF 775 UCUUGAUGACUUCCCUUU 3351 AAAGGGAAGUCAUCAAGA 4386 Rh [2598-2615] 3′UTR 776 GAGUGCAAGAUCACGCGC 3352 GCGCGUGAUCUUGCACUC 4387 Dg, Pg [758-775] ORF 777 UUGUUUCCGUUUGGAUUU 3353 AAAUCCAAACGGAAACAA 4388 [3461-3478] 3′UTR 778 CCUCCCAGUCCCUGCCUU 3354 AAGGCAGGGACUGGGAGG 4389 Rh [1243-1260] 3′UTR 779 AGGCCUACCAGGUCCCUU 3355 AAGGGACCUGGUAGGCCU 4390 Rh [1378-1395] 3′UTR 780 CAAGAUGCACAUCACCCU 3356 AGGGUGAUGUGCAUCUUG 4391 Rh, Dg [661-678] ORF 781 UGGAGGAAAGAAGGAAUA 3357 UAUUCCUUCUUUCCUCCA 4392 Rt [613-630] ORF 782 UGACAAAGAUUACCUAGC 3358 GCUAGGUAAUCUUUGUCA 4393 [2232-2249] 3′UTR 783 GGUGGCUUUGGUGACACA 3359 UGUGUCACCAAAGCCACC 4394 [2083-2100] 3′UTR 784 UCACUUCUUUCUCAGCCU 3360 AGGCUGAGAAAGAAGUGA 4395 [2102-2119] 3′UTR 785 UAAUCAUUCCUGUGCUGU 3361 ACAGCACAGGAAUGAUUA 4396 Rh [2875-2892] 3′UTR 786 AGUAGGUUCGGUCUGAAA 3362 UUUCAGACCGAACCUACU 4397 [3102-3119] 3′UTR 787 CGUUUUGCAAUGCAGAUG 3363 CAUCUGCAUUGCAAAACG 4398 [411-428] ORF 788 GGGCACCAGGCCAAGUUC 3364 GAACUUGGCCUGGUGCCC 4399 Rh, Rb, Rt, Ms [854-871] ORF 789 ACAGAGAAGAACAUCAAC 3365 GUUGAUGUUCUUCUCUGU 4400 Rh [836-853] ORF 790 CAAAAAAAGCCUCCAAGG 3366 CCUUGGAGGCUUUUUUUG 4401 [995-1012] 3′UTR 791 UUGGUAGGUAUUAGACUU 3367 AAGUCUAAUACCUACCAA 4402 [2907-2924] 3′UTR 792 GAGCACUGUGUUUAUGCU 3368 AGCAUAAACACAGUGCUC 4403 [3490-3507] 3′UTR 793 UGUACAGUGACCUAAAGU 3369 ACUUUAGGUCACUGUACA 4404 [2675-2692] 3′UTR 794 AAGAAAUAUUGGACUUGC 3370 GCAAGUCCAAUAUUUCUU 4405 [3417-3434] 3′UTR 795 CAGAAACUUUUGAGGGUC 3371 GACCCUCAAAAGUUUCUG 4406 Rh [1342-1359] 3′UTR 796 UUCCCUUUCUAGGGCAGA 3372 UCUGCCCUAGAAAGGGAA 4407 Rh [2608-2625] 3′UTR 797 CACAUCCAAGGGCAGCCU 3373 AGGCUGCCCUUGGAUGUG 4408 [1517-1534] 3′UTR 798 CAUCUUGAGAGGGACAUG 3374 CAUGUCCCUCUCAAGAUG 4409 [1397-1414] 3′UTR 799 GGCUUUCUGCAUGUGACG 3375 CGUCACAUGCAGAAAGCC 4410 [2012-2029] 3′UTR 800 UAGCUAAGAAACUUCCUA 3376 UAGGAAGUUUCUUAGCUA 4411 [2246-2263] 3′UTR 801 ACAUCCAAGGGCAGCCUG 3377 CAGGCUGCCCUUGGAUGU 4412 [1518-1535] 3′UTR 802 UGUUCCCUCCCUCAAAGA 3378 UCUUUGAGGGAGGGAACA 4413 [1971-1988] 3′UTR 803 GUCUUUUUGGUCUGCACC 3379 GGUGCAGACCAAAAAGAC 4414 [1669-1686] 3′UTR 804 CCAUGAGCUCCCAGCACC 3380 GGUGCUGGGAGCUCAUGG 4415 [1489-1506] 3′UTR 805 AGAUGUAGUGAUCAGGGC 3381 GCCCUGAUCACUACAUCU 4416 [424-441] ORF 806 GAGGUAGGUGGCUUUGGU 3382 ACCAAAGCCACCUACCUC 4417 Rh [2077-2094] 3′UTR 807 AAGCCGCUCAAAUACCUU 3383 AAGGUAUUUGAGCGGCUU 4418 [3219-3236] 3′UTR 808 UGAGCCUUGUAGAAAUGG 3384 CCAUUUCUACAAGGCUCA 4419 Rh [1609-1626] 3′UTR 809 GACGCCAGCUAAGCAUAG 3385 CUAUGCUUAGCUGGCGUC 4420 [2026-2043] 3′UTR 810 GCAGCUUCCACGCCUCUG 3386 CAGAGGCGUGGAAGCUGC 4421 Rh [1428-1445] 3′UTR 811 AGAAUUCCAGUGGGAGCC 3387 GGCUCCCACUGGAAUUCU 4422 Rh [1585-1602] 3′UTR 812 GAACGCGUGGCCUAUGCA 3388 UGCAUAGGCCACGCGUUC 4423 Rh [2977-2994] 3′UTR 813 ACAGAAAAAGCUGGGUCU 3389 AGACCCAGCUUUUUCUGU 4424 Rh [1931-1948] 3′UTR 814 AAGGAAUAUCUCAUUGCA 3390 UGCAAUGAGAUAUUCCUU 4425 [623-640] ORF 815 CAAGAGGAUCCAGUAUGA 3391 UCAUACUGGAUCCUCUUG 4426 Rh, Rb [499-516] ORF 816 AGCUGACAGAGGAAGCCG 3392 CGGCUUCCUCUGUCAGCU 4427 [3207-3224] 3′UTR 817 AUAAAACACUCAUCCCAU 3393 AUGGGAUGAGUGUUUUAU 4428 [1059-1076] 3′UTR 818 GAAUCUCUUGUUUCCUCC 3394 GGAGGAAACAAGAGAUUC 4429 [2360-2377] 3′UTR 819 GUUAUGUUCUAAGCACAG 3395 CUGUGCUUAGAACAUAAC 4430 [3305-3322] 3′UTR 820 ACACGUUGGUCUUUUAAC 3396 GUUAAAAGACCAACGUGU 4431 [3145-3162] 3′UTR 821 GGUGCACCCGCAACAGGC 3397 GCCUGUUGCGGGUGCACC 4432 Cw, Dg, Rt, Ms [394-411] ORF 822 UCUGCAUCGUGGAAGCAU 3398 AUGCUUCCACGAUGCAGA 4433 Rh [2946-2963] 3′UTR 823 CUGCCAGGCACUAUGUGU 3399 ACACAUAGUGCCUGGCAG 4434 [1177-1194] 3′UTR 824 GAAGUCUGAGACCUUCCG 3400 CGGAAGGUCUCAGACUUC 4435 [3515-3532] 3′UTR 825 CUGGUCAGCACAGAUCUU 3401 AAGAUCUGUGCUGACCAG 4436 Rh [2584-2601] 3′UTR 826 GUGCAUUUUGCAGAAACU 3402 AGUUUCUGCAAAAUGCAC 4437 Rh, Rt, Ms [1332-1349] 3′UTR 827 UCAUCUUGAGAGGGACAU 3403 AUGUCCCUCUCAAGAUGA 4438 [1396-1413] 3′UTR 828 CACUUAGGGAUCUCCCAG 3404 CUGGGAGAUCCCUAAGUG 4439 Rh [1289-1306] 3′UTR 829 CACGCAAUGAAACCGAAG 3405 CUUCGGUUUCAUUGCGUG 4440 [2433-2450] 3′UTR 830 GACUGACAGCCAUCGUUC 3406 GAACGAUGGCUGUCAGUC 4441 Rh [1987-2004] 3′UTR 831 AUUGCAAAGUAAAGGAUC 3407 GAUCCUUUACUUUGCAAU 4442 [3080-3097] 3′UTR 832 AGUGGAACGCGUGGCCUA 3408 UAGGCCACGCGUUCCACU 4443 [2973-2990] 3′UTR 833 GUUCGGUCUGAAAGGUGU 3409 ACACCUUUCAGACCGAAC 4444 [3107-3124] 3′UTR 834 UGCAGAUGUAGUGAUCAG 3410 CUGAUCACUACAUCUGCA 4445 [421-438] ORF 835 GUGUUCCCUCAGUGUGGU 3411 ACCACACUGAGGGAACAC 4446 [2282-2299] 3′UTR 836 UGCCGUAAUUUAAAGCUC 3412 GAGCUUUAAAUUACGGCA 4447 [3435-3452] 3′UTR 837 CUGCGGUUGCCAUUGCUU 3413 AAGCAAUGGCAACCGCAG 4448 [1809-1826] 3′UTR 838 CGGCUCCUGUGCGUGGUA 3414 UACCACGCACAGGAGCCG 4449 Rh [895-912] ORF 839 GGGUUUCGACUGGUCCAG 3415 CUGGACCAGUCGAAACCC 4450 Rh [1011-1028] 3′UTR 840 AGAGAAGAACAUCAACGG 3416 CCGUUGAUGUUCUUCUCU 4451 Rh, Rb, Cw [838-855] ORF 841 AUGGACCAGUCCAUGUGA 3417 UCACAUGGACUGGUCCAU 4452 Rh [2708-2725] 3′UTR 842 CCGUGCUACAUCUCCUCC 3418 GGAGGAGAUGUAGCACGG 4453 Rh [788-805] ORF 843 CCAAAGCACCUGUUAAGA 3419 UCUUAACAGGUGCUUUGG 4454 Rh [2522-2539] 3′UTR 844 CAACUGCAAAAAAAGCCU 3420 AGGCUUUUUUUGCAGUUG 4455 [989-1006] 3′UTR 845 CUUUCUCAGCCUCCAGGA 3421 UCCUGGAGGCUGAGAAAG 4456 [2108-2125] 3′UTR 846 UCUAAAGGUGAAUUCUCA 3422 UGAGAAUUCACCUUUAGA 4457 Ms [2159-2176] 3′UTR 847 GCAGACUGGGAGGGUAUC 3423 GAUACCCUCCCAGUCUGC 4458 Rh [2621-2638] 3′UTR 848 CUGGAACCAGUGGCUAGU 3424 ACUAGCCACUGGUUCCAG 4459 [1533-1550] 3′UTR 849 GACUGUGUAGCAGGCCUA 3425 UAGGCCUGCUACACAGUC 4460 Rh [1367-1384] 3′UTR 850 GGCCAAGUUCUUCGCCUG 3426 CAGGCGAAGAACUUGGCC 4461 Rh, Rb, Cw, Dg, Ms [862-879] ORF 851 GUUCGCUUCCUGUAUGGU 3427 ACCAUACAGGAAGCGAAC 4462 [2781-2798] 3′UTR 852 AAUUCCAGUGGGAGCCUC 3428 GAGGCUCCCACUGGAAUU 4463 Rh [1587-1604] 3′UTR 853 UGCAAAAUGCUUCCAAAG 3429 CUUUGGAAGCAUUUUGCA 4464 Rh [2473-2490] 3′UTR 854 CUGGAAUAUGAAGUCUGA 3430 UCAGACUUCAUAUUCCAG 4465 Ms [3506-3523] 3′UTR 855 GCUGUGCCCUCCCAGGCU 3431 AGCCUGGGAGGGCACAGC 4466 [1950-1967] 3′UTR 856 CCAGAUGGGCUGCGAGUG 3432 CACUCGCAGCCCAUCUGG 4467 Rh, Ck, Rb, Rt [745-762] ORF 857 GCGGUUGCCAUUGCUUCU 3433 AGAAGCAAUGGCAACCGC 4468 [1811-1828] 3′UTR 858 AGCUCUGUUGAUUUUGUU 3434 AACAAAAUCAACAGAGCU 4469 [3448-3465] 3′UTR 859 UAUCAUUCUUGAGCAAUC 3435 GAUUGCUCAAGAAUGAUA 4470 [3598-3615] 3′UTR 860 UGGAGGGAGACGUGGGUC 3436 GACCCACGUCUCCCUCCA 4471 [1135-1152] 3′UTR 861 AAGAAACUUCCUAGGGAA 3437 UUCCCUAGGAAGUUUCUU 4472 [2251-2268] 3′UTR 862 AAAGCUGGGUCUUGCUGU 3438 ACAGCAAGACCCAGCUUU 4473 Rh [1937-1954] 3′UTR 863 AAUAUGAAGUCUGAGACC 3439 GGUCUCAGACUUCAUAUU 4474 [3510-3527] 3′UTR 864 UUCCUGAAGCCAGUGAUA 3440 UAUCACUGGCUUCAGGAA 4475 [2300-2317] 3′UTR 865 ACUCCUGUUUCUGCUGAU 3441 AUCAGCAGAAACAGGAGU 4476 [2818-2835] 3′UTR 866 CCAGGCUUAGUGUUCCCU 3442 AGGGAACACUAAGCCUGG 4477 [1961-1978] 3′UTR 867 CCAGAGUGGAACGCGUGG 3443 CCACGCGUUCCACUCUGG 4478 [2969-2986] 3′UTR 868 ACCAGGUCCCUUUCAUCU 3444 AGAUGAAAGGGACCUGGU 4479 Rh [1384-1401] 3′UTR 869 CGAGUGCCUCUGGAUGGA 3445 UCCAUCCAGAGGCACUCG 4480 Rh, Rb, Cw, Dg, Rt, Ms [811-828] ORF 870 UAUGUGUUCCCUCAGUGU 3446 ACACUGAGGGAACACAUA 4481 [2279-2296] 3′UTR 871 GUUUUCAUGCUGUACAGU 3447 ACUGUACAGCAUGAAAAC 4482 Rh [2665-2682] 3′UTR 872 GACUGGGAGGGUAUCCAG 3448 CUGGAUACCCUCCCAGUC 4483 Rh [2624-2641] 3′UTR 873 GUCAGCACAGAUCUUGAU 3449 AUCAAGAUCUGUGCUGAC 4484 Rh [2587-2604] 3′UTR 874 CGGCCUGGGCGUGGUCUU 3450 AAGACCACGCCCAGGCCG 4485 [2456-2473] 3′UTR 875 CUGCGAGUGCAAGAUCAC 3451 GUGAUCUUGCACUCGCAG 4486 Rt [754-771] ORF 876 UGAAAGGUGUGGCCUUUA 3452 UAAAGGCCACACCUUUCA 4487 [3115-3132] 3′UTR 877 UGUUCUGGCAUCAGGCAC 3453 GUGCCUGAUGCCAGAACA 4488 [1833-1850] 3′UTR 878 GGGCUUGUGUGCAGGGCC 3454 GGCCCUGCACACAAGCCC 4489 Rh [1882-1899] 3′UTR 879 CCACCCAGAAGAAGAGCC 3455 GGCUCUUCUUCUGGGUGG 4490 Rh, Ck, Cw, Rt, Ms, Pg [714-731] ORF 880 CAGCUGAGCUGCGUUCCA 3456 UGGAACGCAGCUCAGCUG 4491 [1640-1657] 3′UTR 881 UCUGGAUGGACUGGGUCA 3457 UGACCCAGUCCAUCCAGA 4492 Rh, Rb, Cw, Dg, Rt, Ms, [819-836] ORF Pg 882 CCCAAGCAGGAGUUUCUC 3458 GAGAAACUCCUGCUUGGG 4493 Dg [929-946] ORF 883 AAGGUGUGGCCUUUAUAU 3459 AUAUAAAGGCCACACCUU 4494 [3118-3135] 3′UTR 884 CCUCCCAGGCUUAGUGUU 3460 AACACUAAGCCUGGGAGG 4495 [1957-1974] 3′UTR 885 CCAACUGCAAAAAAAGCC 3461 GGCUUUUUUUGCAGUUGG 4496 [988-1005] 3′UTR 886 CUGGAUUGAGUUGCACAG 3462 CUGUGCAACUCAAUCCAG 4497 [1851-1868] 3′UTR 887 AUGGCCUGUUUUAAGAGA 3463 UCUCUUAAAACAGGCCAU 4498 [2130-2147] 3′UTR 888 UGUAUCAUUCUUGAGCAA 3464 UUGCUCAAGAAUGAUACA 4499 [3596-3613] 3′UTR 889 AGAGUUUAUCUACACGGC 3465 GCCGUGUAGAUAAACUCU 4500 Dg, Ms, Pg [559-576] ORF 890 CGGGACCUGGUCAGCACA 3466 UGUGCUGACCAGGUCCCG 4501 Rh [2578-2595] 3′UTR 891 AUGACAAAGAUUACCUAG 3467 CUAGGUAAUCUUUGUCAU 4502 [2231-2248] 3′UTR 892 UGAAGCCAGUGAUAUGGG 3468 CCCAUAUCACUGGCUUCA 4503 [2304-2321] 3′UTR 893 GUGGCCUUUAUAUUUGAU 3469 AUCAAAUAUAAAGGCCAC 4504 [3123-3140] 3′UTR 894 UAAGCAUAGUAAGAAGUC 3470 GACUUCUUACUAUGCUUA 4505 [2035-2052] 3′UTR 895 CUGCACAUCCUGAGGACA 3471 UGUCCUCAGGAUGUGCAG 4506 Rh [1916-1933] 3′UTR 896 AGUUGACAAGCAGACUGC 3472 GCAGUCUGCUUGUCAACU 4507 [3561-3578] 3′UTR 897 UGAGCUCCCAGCACCUGA 3473 UCAGGUGCUGGGAGCUCA 4508 [1492-1509] 3′UTR 898 CUGUUAAGACUCCUGACC 3474 GGUCAGGAGUCUUAACAG 4509 Rh [2531-2548] 3′UTR 899 CACAUCACCCUCUGUGAC 3475 GUCACAGAGGGUGAUGUG 4510 Rh [668-685] ORF 900 AAAGUUGACAAGCAGACU 3476 AGUCUGCUUGUCAACUUU 4511 [3559-3576] 3′UTR 901 CCAAGUGGCAUGCAGCCC 3477 GGGCUGCAUGCCACUUGG 4512 [2550-2567] 3′UTR 902 GUACCAGAUGGGCUGCGA 3478 UCGCAGCCCAUCUGGUAC 4513 Rh, Ck, Rb, Rt [742-759] ORF 903 UGUUUCCGUUUGGAUUUU 3479 AAAAUCCAAACGGAAACA 4514 [3462-3479] 3′UTR 904 AUCUUUGAGUAGGUUCGG 3480 CCGAACCUACUCAAAGAU 4515 [3095-3112] 3′UTR 905 UGAUCCCGUGCUACAUCU 3481 AGAUGUAGCACGGGAUCA 4516 Rh, Rb [783-800] ORF 906 ACCUGGUCAGCACAGAUC 3482 GAUCUGUGCUGACCAGGU 4517 Rh [2582-2599] 3′UTR 907 CACUUCUUUCUCAGCCUC 3483 GAGGCUGAGAAAGAAGUG 4518 [2103-2120] 3′UTR 908 GCUGCUGCGGUUGCCAUU 3484 AAUGGCAACCGCAGCAGC 4519 [1805-1822] 3′UTR 909 CAUUGCUUCUUGCCUGUU 3485 AACAGGCAAGAAGCAAUG 4520 [1819-1836] 3′UTR 910 CUGGAGGGAGACGUGGGU 3486 ACCCACGUCUCCCUCCAG 4521 [1134-1151] 3′UTR 911 UGGUGACACACUCACUUC 3487 GAAGUGAGUGUGUCACCA 4522 [2091-2108] 3′UTR 912 GGCAGGGCUGGGACACGC 3488 GCGUGUCCCAGCCCUGCC 4523 [1219-1236] 3′UTR 913 UGAACCACAGGUACCAGA 3489 UCUGGUACCUGUGGUUCA 4524 Rh, Rb, Cw, Ms, Pg [732-749] ORF 914 GUUAGGAUAGGAAGAACU 3490 AGUUCUUCCUAUCCUAAC 4525 [2323-2340] 3′UTR 915 AGCUUUGCUUUAUCCGGG 3491 CCCGGAUAAAGCAAAGCU 4526 [1867-1884] 3′UTR 916 CUGUCCUGAGGCUGCUGU 3492 ACAGCAGCCUCAGGACAG 4527 Rh [1751-1768] 3′UTR 917 AUUGCUUCUUGCCUGUUC 3493 GAACAGGCAAGAAGCAAU 4528 [1820-1837] 3′UTR 918 GAGCACCACCCAGAAGAA 3494 UUCUUCUGGGUGGUGCUC 4529 Rh, Pg [709-726] ORF 919 GUAGUGAUCAGGGCCAAA 3495 UUUGGCCCUGAUCACUAC 4530 Cw, Rt, Pg [428-445] ORF 920 CCUGUUAAGACUCCUGAC 3496 GUCAGGAGUCUUAACAGG 4531 Rh [2530-2547] 3′UTR 921 AGGGUUUCGACUGGUCCA 3497 UGGACCAGUCGAAACCCU 4532 Rh [1010-1027] 3′UTR 922 UCAUCCCAUGGGUCCAAA 3498 UUUGGACCCAUGGGAUGA 4533 [1068-1085] 3′UTR 923 GCCCUUGUUUUCUGCAGC 3499 GCUGCAGAAAACAAGGGC 4534 Rh [1415-1432] 3′UTR 924 GUUGACAAGCAGACUGCG 3500 CGCAGUCUGCUUGUCAAC 4535 [3562-3579] 3′UTR 925 AGGGAACCUAUGUGUUCC 3501 GGAACACAUAGGUUCCCU 4536 Rh [2271-2288] 3′UTR 926 CCCAGCUGGGUUAGGGCA 3502 UGCCCUAACCCAGCUGGG 4537 [1302-1319] 3′UTR 927 GUUGGUCUUUUAACCGUG 3503 CACGGUUAAAAGACCAAC 4538 [3149-3166] 3′UTR 928 UUAUGGCAACCCUAUCAA 3504 UUGAUAGGGUUGCCAUAA 4539 [484-501] ORF 929 CUAAAGUUGGUAAGAUGU 3505 ACAUCUUACCAACUUUAG 4540 Rh [2686-2703] 3′UTR 930 UGAAUUCUCAGAUGAUAG 3506 CUAUCAUCUGAGAAUUCA 4541 [2167-2184] 3′UTR 931 UGCAGGUGGAUUCCUUCA 3507 UGAAGGAAUCCACCUGCA 4542 Rh [2991-3008] 3′UTR 932 CUGCGCAUGUCUCUGAUG 3508 CAUCAGAGACAUGCGCAG 4543 [3575-3592] 3′UTR 933 GAAGAACAUCAACGGGCA 3509 UGCCCGUUGAUGUUCUUC 4544 Rh, Rb [841-858] ORF 934 GGCGCUCGGCCUCCUGCU 3510 AGCAGGAGGCCGAGCGCC 4545 Dg, Rt, Ms [331-348] ORF 935 CUGAGGACAGAAAAAGCU 3511 AGCUUUUUCUGUCCUCAG 4546 Rh [1925-1942] 3′UTR 936 AUCUUGAUGACUUCCCUU 3512 AAGGGAAGUCAUCAAGAU 4547 Rh [2597-2614] 3′UTR 937 UAGGUAUUAGACUUGCAC 3513 GUGCAAGUCUAAUACCUA 4548 [2911-2928] 3′UTR 938 UGAAGUCUGAGACCUUCC 3514 GGAAGGUCUCAGACUUCA 4549 [3514-3531] 3′UTR 939 CCGUAAUUUAAAGCUCUG 3515 CAGAGCUUUAAAUUACGG 4550 [3437-3454] 3′UTR 940 AAGGCUCUCCAUUUGGCA 3516 UGCCAAAUGGAGAGCCUU 4551 [3272-3289] 3′UTR 941 UAGGGAACCUAUGUGUUC 3517 GAACACAUAGGUUCCCUA 4552 Rh [2270-2287] 3′UTR 942 GCUCCCAGCACCUGACUC 3518 GAGUCAGGUGCUGGGAGC 4553 [1495-1512] 3′UTR 943 UGGAUUGAGUUGCACAGC 3519 GCUGUGCAACUCAAUCCA 4554 [1852-1869] 3′UTR 944 CUGCUGGCGACGCUGCUU 3520 AAGCAGCGUCGCCAGCAG 4555 [347-364] ORF 945 CUGCGUUCCAGCCUCAGC 3521 GCUGAGGCUGGAACGCAG 4556 [1648-1665] 3′UTR 946 GUGACUUCAUCGUGCCCU 3522 AGGGCACGAUGAAGUCAC 4557 Rh, Rb, Cw, Dg, Pg [681-698] ORF 947 GCCCUGGGACACCCUGAG 3523 CUCAGGGUGUCCCAGGGC 4558 Rh, Cw, Dg, Pg [694-711] ORF 948 UAUACAACUCCACCAGAC 3524 GUCUGGUGGAGUUGUAUA 4559 Rh [2734-2751] 3′UTR 949 ACCUUCCGGUGCUGGGAA 3525 UUCCCAGCACCGGAAGGU 4560 [3525-3542] 3′UTR 950 GCUUUCUGCAUGUGACGC 3526 GCGUCACAUGCAGAAAGC 4561 [2013-2030] 3′UTR 951 CCACAUCCAAGGGCAGCC 3527 GGCUGCCCUUGGAUGUGG 4562 [1516-1533] 3′UTR 952 GCAGCACUUAGGGAUCUC 3528 GAGAUCCCUAAGUGCUGC 4563 Rh [1285-1302] 3′UTR 953 UGGGUCCAAGGUCCUCAU 3529 AUGAGGACCUUGGACCCA 4564 [1147-1164] 3′UTR 954 UCUAGGGCAGACUGGGAG 3530 CUCCCAGUCUGCCCUAGA 4565 Rh [2615-2632] 3′UTR 955 GAAGGGAAGGAUUUUGGA 3531 UCCAAAAUCCUUCCCUUC 4566 Rh [2061-2078] 3′UTR 956 GAGGAAUCGGUGAGGUCC 3532 GGACCUCACCGAUUCCUC 4567 [1734-1751] 3′UTR 957 AUUUGACCCAGAGUGGAA 3533 UUCCACUCUGGGUCAAAU 4568 [2962-2979] 3′UTR 958 GGCGACGCUGCUUCGCCC 3534 GGGCGAAGCAGCGUCGCC 4569 [352-369] ORF 959 UUAGCCUGUUCUAUUCAG 3535 CUGAAUAGAACAGGCUAA 4570 Rh [2496-2513] 3′UTR 960 AGCUGAGCUGCGUUCCAG 3536 CUGGAACGCAGCUCAGCU 4571 [1641-1658] 3′UTR 961 AAGUUGACAAGCAGACUG 3537 CAGUCUGCUUGUCAACUU 4572 [3560-3577] 3′UTR 962 AGCACAGAUCUUGAUGAC 3538 GUCAUCAAGAUCUGUGCU 4573 Rh [2590-2607] 3′UTR 963 GAGGGUAUCCAGGAAUCG 3539 CGAUUCCUGGAUACCCUC 4574 [2630-2647] 3′UTR 964 AGUGUGGUUUCCUGAAGC 3540 GCUUCAGGAAACCACACU 4575 [2292-2309] 3′UTR 965 UCCUUUUAGACAUGGUUG 3541 CAACCAUGUCUAAAAGGA 4576 [1111-1128] 3′UTR 966 GUUUCCUCCCACCUGUGU 3542 ACACAGGUGGGAGGAAAC 4577 [2369-2386] 3′UTR 967 CACUAUGGCCUGUUUUAA 3543 UUAAAACAGGCCAUAGUG 4578 [2126-2143] 3′UTR 968 CCAGCUGGGUUAGGGCAG 3544 CUGCCCUAACCCAGCUGG 4579 [1303-1320] 3′UTR 969 UGCGUUCCAGCCUCAGCU 3545 AGCUGAGGCUGGAACGCA 4580 [1649-1666] 3′UTR 970 CCAGCCUAGGAAGGGAAG 3546 CUUCCCUUCCUAGGCUGG 4581 Rh [2052-2069] 3′UTR 971 GCUGGGUCUUGCUGUGCC 3547 GGCACAGCAAGACCCAGC 4582 Rh [1940-1957] 3′UTR 972 GUUUCUCGACAUCGAGGA 3548 UCCUCGAUGUCGAGAAAC 4583 Ck, Dg [940-957] ORF 973 GCUGGGACACGCGGCUUC 3549 GAAGCCGCGUGUCCCAGC 4584 [1225-1242] 3′UTR 974 UACCAACUUCUGCUUGUA 3550 UACAAGCAGAAGUUGGUA 4585 Rh [2205-2222] 3′UTR 975 UCCAAGGGCAGCCUGGAA 3551 UUCCAGGCUGCCCUUGGA 4586 [1521-1538] 3′UTR 976 CAACCCUAUCAAGAGGAU 3552 AUCCUCUUGAUAGGGUUG 4587 [490-507] ORF 977 CAGCUGAGUCUUUUUGGU 3553 ACCAAAAAGACUCAGCUG 4588 Rh [1662-1679] 3′UTR 978 UGUUAAGACUCCUGACCC 3554 GGGUCAGGAGUCUUAACA 4589 Rh [2532-2549] 3′UTR 979 UAUCAAGAGGAUCCAGUA 3555 UACUGGAUCCUCUUGAUA 4590 Rh, Rb [496-513] ORF 980 GCACCAGGCCAAGUUCUU 3556 AAGAACUUGGCCUGGUGC 4591 Rh, Rb, Cw, Rt, Ms [856-873] ORF 981 GGGCUGGGACACGCGGCU 3557 AGCCGCGUGUCCCAGCCC 4592 [1223-1240] 3′UTR 982 GGUCCCUUCCCUAGCUGC 3558 GCAGCUAGGGAAGGGACC 4593 [1792-1809] 3′UTR 983 UGAUAGGUGAACCUGAGU 3559 ACUCAGGUUCACCUAUCA 4594 [2179-2196] 3′UTR 984 AUUCCUGUGCUGUGUUUU 3560 AAAACACAGCACAGGAAU 4595 Rh [2880-2897] 3′UTR 985 GAUGCACAUCACCCUCUG 3561 CAGAGGGUGAUGUGCAUC 4596 Rh [664-681] ORF 986 CCAGGCACUAUGUGUCUG 3562 CAGACACAUAGUGCCUGG 4597 [1180-1197] 3′UTR 987 GCUGCUGGCGACGCUGCU 3563 AGCAGCGUCGCCAGCAGC 4598 [346-363] ORF 988 UCCAGUGGGAGCCUCCCU 3564 AGGGAGGCUCCCACUGGA 4599 Rh [1590-1607] 3′UTR 989 AGCUCUGACAUCCCUUCC 3565 GGAAGGGAUGUCAGAGCU 4600 Rh [1027-1044] 3′UTR 990 ACAGCUUUGCUUUAUCCG 3566 CGGAUAAAGCAAAGCUGU 4601 [1865-1882] 3′UTR 991 GGGAACCUAUGUGUUCCC 3567 GGGAACACAUAGGUUCCC 4602 Rh [2272-2289] 3′UTR 992 CAGGAGUUUCUCGACAUC 3568 GAUGUCGAGAAACUCCUG 4603 Ck, Dg [935-952] ORF 993 GUCCCUUCCCUAGCUGCU 3569 AGCAGCUAGGGAAGGGAC 4604 [1793-1810] 3′UTR 994 AGGUUCGGUCUGAAAGGU 3570 ACCUUUCAGACCGAACCU 4605 [3105-3122] 3′UTR 995 UGACGAUAUACAGGCACA 3571 UGUGCCUGUAUAUCGUCA 4606 [2400-2417] 3′UTR 996 AGUCUUUUUGGUCUGCAC 3572 GUGCAGACCAAAAAGACU 4607 [1668-1685] 3′UTR 997 CACCCUGAGCACCACCCA 3573 UGGGUGGUGCUCAGGGUG 4608 Rh, Pg [703-720] ORF 998 GAGAAGAACAUCAACGGG 3574 CCCGUUGAUGUUCUUCUC 4609 Rh, Rb [839-856] ORF 999 GAGAAGUGACGGCUCCUG 3575 CAGGAGCCGUCACUUCUC 4610 [886-903] ORF 1000 UGCGAGUGCAAGAUCACG 3576 CGUGAUCUUGCACUCGCA 4611 [755-772] ORF 1001 AAGUAAAGGAUCUUUGAG 3577 CUCAAAGAUCCUUUACUU 4612 [3086-3103] 3′UTR 1002 AGGCACAUUAUGUAAACA 3578 UGUUUACAUAAUGUGCCU 4613 Rh [2411-2428] 3′UTR 1003 CGCUCGGUCCGUGGACAA 3579 UUGUCCACGGACCGAGCG 4614 [3615-3632] 3′UTR 1004 GUUAAGAAGAGCCGGGUG 3580 CACCCGGCUCUUCUUAAC 4615 [3187-3204] 3′UTR 1005 GUGGAACGCGUGGCCUAU 3581 AUAGGCCACGCGUUCCAC 4616 [2974-2991] 3′UTR 1006 AAAGUUGGUAAGAUGUCA 3582 UGACAUCUUACCAACUUU 4617 Rh [2688-2705] 3′UTR 1007 AGCUGCUGCGGUUGCCAU 3583 AUGGCAACCGCAGCAGCU 4618 [1804-1821] 3′UTR 1008 CUGCAUCGUGGAAGCAUU 3584 AAUGCUUCCACGAUGCAG 4619 Rh [2947-2964] 3′UTR 1009 UACUCCUGUUUCUGCUGA 3585 UCAGCAGAAACAGGAGUA 4620 [2817-2834] 3′UTR 1010 CCUUGUAGAAAUGGGAGC 3586 GCUCCCAUUUCUACAAGG 4621 Rh [1613-1630] 3′UTR 1011 AACCUAUGUGUUCCCUCA 3587 UGAGGGAACACAUAGGUU 4622 [2275-2292] 3′UTR 1012 UAGUUUAAGAAGGCUCUC 3588 GAGAGCCUUCUUAAACUA 4623 [3263-3280] 3′UTR 1013 UGCGCAUGUCUCUGAUGC 3589 GCAUCAGAGACAUGCGCA 4624 [3576-3593] 3′UTR 1014 AGAGAAGUGACGGCUCCU 3590 AGGAGCCGUCACUUCUCU 4625 [885-902] ORF 1015 CAAGGGUUUCGACUGGUC 3591 GACCAGUCGAAACCCUUG 4626 Rh [1008-1025] 3′UTR 1016 UCUAAGCACAGCUCUCUU 3592 AAGAGAGCUGUGCUUAGA 4627 [3312-3329] 3′UTR 1017 AUUUGAUCCACACACGUU 3593 AACGUGUGUGGAUCAAAU 4628 [3134-3151] 3′UTR 1018 CUUCCCUCCCAGUCCCUG 3594 CAGGGACUGGGAGGGAAG 4629 [1239-1256] 3′UTR 1019 AAGAAGGCUCUCCAUUUG 3595 CAAAUGGAGAGCCUUCUU 4630 [3269-3286] 3′UTR 1020 CGGGUGGCAGCUGACAGA 3596 UCUGUCAGCUGCCACCCG 4631 [3199-3216] 3′UTR 1021 UGGGAGCCUCCCUCUGAG 3597 CUCAGAGGGAGGCUCCCA 4632 Rh [1595-1612] 3′UTR 1022 UAUACCAACUUCUGCUUG 3598 CAAGCAGAAGUUGGUAUA 4633 Rh [2203-2220] 3′UTR 1023 UGGAUGGACUGGGUCACA 3599 UGUGACCCAGUCCAUCCA 4634 Rh, Rt, Ms, Pg [821-838] ORF 1024 CAGAGUGGAACGCGUGGC 3600 GCCACGCGUUCCACUCUG 4635 [2970-2987] 3′UTR 1025 UCUCUUGUUUCCUCCCAC 3601 GUGGGAGGAAACAAGAGA 4636 [2363-2380] 3′UTR 1026 CACCAUGAGCUCCCAGCA 3602 UGCUGGGAGCUCAUGGUG 4637 [1487-1504] 3′UTR 1027 AUCUGCACAUCCUGAGGA 3603 UCCUCAGGAUGUGCAGAU 4638 Rh [1914-1931] 3′UTR 1028 CCCUUGUUUUCUGCAGCU 3604 AGCUGCAGAAAACAAGGG 4639 Rh [1416-1433] 3′UTR 1029 CCCUUCCUGGAAACAGCA 3605 UGCUGUUUCCAGGAAGGG 4640 Rh, Rb, Rt, Ms [1038-1055] 3′UTR 1030 ACCAUGAGCUCCCAGCAC 3606 GUGCUGGGAGCUCAUGGU 4641 [1488-1505] 3′UTR 1031 CACACGUUGGUCUUUUAA 3607 UUAAAAGACCAACGUGUG 4642 [3144-3161] 3′UTR 1032 CUGAGUCUUUUUGGUCUG 3608 CAGACCAAAAAGACUCAG 4643 [1665-1682] 3′UTR 1033 CCCUCCCAGUCCCUGCCU 3609 AGGCAGGGACUGGGAGGG 4644 Rh [1242-1259] 3′UTR 1034 UCAGCCUCCAGGACACUA 3610 UAGUGUCCUGGAGGCUGA 4645 [2113-2130] 3′UTR 1035 UGCUUUAUCCGGGCUUGU 3611 ACAAGCCCGGAUAAAGCA 4646 [1872-1889] 3′UTR

TABLE B6 18 -mer siTIMP2 Cross-Species SEQ SEQ ID ID human-73858577 No. Sense (5′ > 3′) NO: Antisense (5′ > 3′) NO: Other Sp ORF: 303-965  1 ACCAGAUGGGCUGCGAGU 4647 ACUCGCAGCCCAUCUGGU 4707 Rh, Ck, Rb, Rt  [744-761] ORF  2 ACAGGUACCAGAUGGGCU 4648 AGCCCAUCUGGUACCUGU 4708 Rh, Rb, Cw, Rt, Ms, Pg  [738-755] ORF  3 GAAGAGCCUGAACCACAG 4649 CUGUGGUUCAGGCUCUUC 4709 Rh, Rb, Cw, Ms, Pg  [724-741] ORF  4 UCUUCGCCUGCAUCAAGA 4650 UCUUGAUGCAGGCGAAGA 4710 Rh, Rb, Cw, Dg, Ms  [870-887] ORF  5 CGGGCACCAGGCCAAGUU 4651 AACUUGGCCUGGUGCCCG 4711 Rh, Rb, Rt, Ms  [853-870] ORF  6 CGCUCGGCCUCCUGCUGC 4652 GCAGCAGGAGGCCGAGCG 4712 Dg, Rt, Ms  [333-350] ORF  7 CAUCCCUUCCUGGAAACA 4653 UGUUUCCAGGAAGGGAUG 4713 Rh, Rb, Rt, Ms [1035-1052] 3′UTR  8 CACCCGCAACAGGCGUUU 4654 AAACGCCUGUUGCGGGUG 4714 Cw, Rt, Ms  [398-415] ORF  9 GGCCGACGCCUGCAGCUG 4655 CAGCUGCAGGCGUCGGCC 4715 Cw, Dg, Rt, Ms  [370-387] ORF 10 GUGCCUCUGGAUGGACUG 4656 CAGUCCAUCCAGAGGCAC 4716 Rh, Rb, Cw, Dg, Rt, Ms  [814-831] ORF 11 CCUGAACCACAGGUACCA 4657 UGGUACCUGUGGUUCAGG 4717 Rh, Rb, Cw, Ms, Pg  [730-747] ORF 12 UCCUGGAAACAGCAUGAA 4658 UUCAUGCUGUUUCCAGGA 4718 Rh, Rb, Rt, Ms [1042-1059] 3′UTR 13 GUCUCGCUGGACGUUGGA 4659 UCCAACGUCCAGCGAGAC 4719 Rt, Ms  [599-616] ORF 14 GCCGACGCCUGCAGCUGC 4660 GCAGCUGCAGGCGUCGGC 4720 Cw, Dg, Rt, Ms  [371-388] ORF 15 AACCACAGGUACCAGAUG 4661 CAUCUGGUACCUGUGGUU 4721 Rh, Rb, Cw, Rt, Ms, Pg  [734-751] ORF 16 CCCGGUGCACCCGCAACA 4662 UGUUGCGGGUGCACCGGG 4722 Cw, Dg, Rt, Ms  [391-408] ORF 17 CACAGGUACCAGAUGGGC 4663 GCCCAUCUGGUACCUGUG 4723 Rh, Rb, Cw, Rt, Ms, Pg  [737-754] ORF 18 CCCGCAACAGGCGUUUUG 4664 CAAAACGCCUGUUGCGGG 4724 Cw, Rt, Ms  [400-417] ORF 19 UCAAGCAGAUAAAGAUGU 4665 ACAUCUUUAUCUGCUUGA 4725 Cw, Dg, Rt, Ms, Pg  [519-536] ORF 20 CACCAGGCCAAGUUCUUC 4666 GAAGAACUUGGCCUGGUG 4726 Rh, Rb, Cw, Ms  [857-874] ORF 21 ACCACAGGUACCAGAUGG 4667 CCAUCUGGUACCUGUGGU 4727 Rh, Rb, Cw, Rt, Ms, Pg  [735-752] ORF 22 UCUCGCUGGACGUUGGAG 4668 CUCCAACGUCCAGCGAGA 4728 Rt, Ms  [600-617] ORF 23 CAAGCAGAUAAAGAUGUU 4669 AACAUCUUUAUCUGCUUG 4729 Cw, Dg, Rt, Ms, Pg  [520-537] ORF 24 GAUAAAGAUGUUCAAAGG 4670 CCUUUGAACAUCUUUAUC 4730 Dg, Rt, Ms  [526-543] ORF 25 GCACCCGCAACAGGCGUU 4671 AACGCCUGUUGCGGGUGC 4731 Cw, Dg, Rt, Ms  [397-414] ORF 26 CAGGCCAAGUUCUUCGCC 4672 GGCGAAGAACUUGGCCUG 4732 Rh, Rb, Cw, Dg, Ms  [860-877] ORF 27 UGCACCCGCAACAGGCGU 4673 ACGCCUGUUGCGGGUGCA 4733 Cw, Dg, Rt, Ms  [396-413] ORF 28 CAGGUACCAGAUGGGCUG 4674 CAGCCCAUCUGGUACCUG 4734 Rh, Rb, Cw, Dg, Rt, Ms, Pg  [739-756] ORF 29 GCUGGCGCUCGGCCUCCU 4675 AGGAGGCCGAGCGCCAGC 4735 Dg, Rt, Ms  [328-345] ORF 30 GCGCUCGGCCUCCUGCUG 4676 CAGCAGGAGGCCGAGCGC 4736 Dg, Rt, Ms  [332-349] ORF 31 GACGCCUGCAGCUGCUCC 4677 GGAGCAGCUGCAGGCGUC 4737 Cw, Dg, Rt, Ms  [374-391] ORF 32 UACCAGAUGGGCUGCGAG 4678 CUCGCAGCCCAUCUGGUA 4738 Rh, Ck, Rb, Rt  [743-760] ORF 33 GCUCGGCCUCCUGCUGCU 4679 AGCAGCAGGAGGCCGAGC 4739 Dg, Rt, Ms  [334-351] ORF 34 CGGUGCACCCGCAACAGG 4680 CCUGUUGCGGGUGCACCG 4740 Cw, Dg, Rt, Ms  [393-410] ORF 35 CCGGUGCACCCGCAACAG 4681 CUGUUGCGGGUGCACCGG 4741 Cw, Dg, Rt, Ms  [392-409] ORF 36 ACCCGCAACAGGCGUUUU 4682 AAAACGCCUGUUGCGGGU 4742 Cw, Rt, Ms  [399-416] ORF 37 AUCAAGCAGAUAAAGAUG 4683 CAUCUUUAUCUGCUUGAU 4743 Cw, Dg, Rt, Ms, Pg  [518-535] ORF 38 CCACAGGUACCAGAUGGG 4684 CCCAUCUGGUACCUGUGG 4744 Rh, Rb, Cw, Rt, Ms, Pg  [736-753] ORF 39 CCGACGCCUGCAGCUGCU 4685 AGCAGCUGCAGGCGUCGG 4745 Cw, Dg, Rt, Ms  [372-389] ORF 40 CUUCAUCGUGCCCUGGGA 4686 UCCCAGGGCACGAUGAAG 4746 Rh, Rb, Cw, Dg, Pg  [685-702] ORF 41 CGGCCGACGCCUGCAGCU 4687 AGCUGCAGGCGUCGGCCG 4747 Cw, Dg, Rt, Ms  [369-386] ORF 42 GUGCACCCGCAACAGGCG 4688 CGCCUGUUGCGGGUGCAC 4748 Cw, Dg, Rt, Ms  [395-412] ORF 43 CGACGCCUGCAGCUGCUC 4689 GAGCAGCUGCAGGCGUCG 4749 Cw, Dg, Rt, Ms  [373-390] ORF 44 ACCAGGCCAAGUUCUUCG 4690 CGAAGAACUUGGCCUGGU 4750 Rh, Rb, Cw, Ms  [858-875] ORF 45 UGCCUCUGGAUGGACUGG 4691 CCAGUCCAUCCAGAGGCA 4751 Rh, Rb, Cw, Dg, Rt, Ms  [815-832] ORF 46 AACAGGCGUUUUGCAAUG 4692 CAUUGCAAAACGCCUGUU 4752 Cw, Rt, Ms  [405-422] ORF 47 CUCGGCCUCCUGCUGCUG 4693 CAGCAGCAGGAGGCCGAG 4753 Dg, Rt  [335-352] ORF 48 CGGCCUCCUGCUGCUGGC 4694 GCCAGCAGCAGGAGGCCG 4754 Dg, Rt  [337-354] ORF 49 CCAGGCCAAGUUCUUCGC 4695 GCGAAGAACUUGGCCUGG 4755 Rh, Rb, Cw, Dg, Ms  [859-876] ORF 50 CUGGCGCUCGGCCUCCUG 4696 CAGGAGGCCGAGCGCCAG 4756 Dg, Rt, Ms  [329-346] ORF 51 UCGGCCUCCUGCUGCUGG 4697 CCAGCAGCAGGAGGCCGA 4757 Dg, Rt  [336-353] ORF 52 UGGCGCUCGGCCUCCUGC 4698 GCAGGAGGCCGAGCGCCA 4758 Dg, Rt, Ms  [330-347] ORF 53 AGGUACCAGAUGGGCUGC 4699 GCAGCCCAUCUGGUACCU 4759 Rh, Ck, Rb, Rt  [740-757] ORF 54 CUGUGACUUCAUCGUGCC 4700 GGCACGAUGAAGUCACAG 4760 Rh, Rb, Cw, Dg, Pg  [679-696] ORF 55 GACUUCAUCGUGCCCUGG 4701 CCAGGGCACGAUGAAGUC 4761 Rh, Rb, Cw, Dg, Pg  [683-700] ORF 56 ACGCCUGCAGCUGCUCCC 4702 GGGAGCAGCUGCAGGCGU 4762 Cw, Dg, Rt, Ms  [375-392] ORF 57 AAGAGCCUGAACCACAGG 4703 CCUGUGGUUCAGGCUCUU 4763 Rh, Rb, Cw, Ms, Pg  [725-742] ORF 58 CAGGGCCAAAGCGGUCAG 4704 CUGACCGCUUUGGCCCUG 4764 Rb, Dg  [436-453] ORF 59 UGACUUCAUCGUGCCCUG 4705 CAGGGCACGAUGAAGUCA 4765 Rh, Rb, Cw, Dg, Pg  [682-699] ORF 60 UGUGACUUCAUCGUGCCC 4706 GGGCACGAUGAAGUCACA 4766 Rh, Rb, Cw, Dg, Pg  [680-697] ORF

TABLE B7 Preferred 18 + 1 -mer siTIMP2 SEQ SEQ ID ID SiTIMP2_p# Sense (5′ > 3′) NO: Antisense (5′ > 3′) NO: Length Position siTIMP2_p1 GGAGGAAAGAAGGAAUAUA 4767 UAUAUUCCUUCUUUCCUCC 4815 18 + 1  [614-631] ORF siTIMP2_p2 GGACGUUGGAGGAAAGAAA 4768 UUUCUUUCCUCCAACGUCC 4816 18 + 1  [607-624] ORF siTIMP2-p3 GGGUCUCGCUGGACGUUGA 4769 UCAACGUCCAGCGAGACCC 4817 18 + 1  [597-614] ORF siTIMP2_p5 GGACUGGGUCACAGAGAAA 4770 UUUCUCUGUGACCCAGUCC 4818 18 + 1  [826-843] ORF siTIMP2_p6 CUGCAUCAAGAGAAGUGAA 4771 UUCACUUCUCUUGAUGCAG 4819 18 + 1  [877-894] ORF siTIMP2_p7 GAGGAAAGAAGGAAUAUCA 4772 UGAUAUUCCUUCUUUCCUC 4820 18 + 1  [615-632] ORF siTIMP2_p8 GCUGGACGUUGGAGGAAAA 4773 UUUUCCUCCAACGUCCAGC 4821 18 + 1  [604-621] ORF siTIMP2_p9 GGCGUUUUGCAAUGCAGAA 4774 UUCUGCAUUGCAAAACGCC 4822 18 + 1  [409-426] ORF siTIMP2_p10 GCCUGCAUCAAGAGAAGUA 4775 UACUUCUCUUGAUGCAGGC 4823 18 + 1  [875-892] ORF siTIMP2_p11 AGGAAAGAAGGAAUAUCUA 4776 UAGAUAUUCCUUCUUUCCU 4824 18 + 1  [616-633] ORF siTIMP2_p12 AGAUCAAGCAGAUAAAGAA 4777 UUCUUUAUCUGCUUGAUCU 4825 18 + 1  [516-533] ORF siTIMP2_p13 GUUGGAGGAAAGAAGGAAA 4778 UUUCCUUCUUUCCUCCAAC 4826 18 + 1  [611-628] ORF siTIMP2_p14 GCUGCGAGUGCAAGAUCAA 4779 UUGAUCUUGCACUCGCAGC 4827 18 + 1  [753-770] ORF siTIMP2_p15 GGGCUGCGAGUGCAAGAUA 4780 UAUCUUGCACUCGCAGCCC 4828 18 + 1  [751-768] ORF siTIMP2_p19 GACAUCCCUUCCUGGAAAA 4781 UUUUCCAGGAAGGGAUGUC 4829 18 + 1 [1033-1050] 3′UTR siTIMP2-p21 GAUGGACUGGGUCACAGAA 4782 UUCUGUGACCCAGUCCAUC 4830 18 + 1  [823-840] ORF siTIMP2_p22 GCCUCUGGAUGGACUGGGA 4783 UCCCAGUCCAUCCAGAGGC 4831 18 + 1  [816-833] ORF siTIMP2_p23 GAGUGCCUCUGGAUGGACA 4784 UGUCCAUCCAGAGGCACUC 4832 18 + 1  [812-829] ORF siTIMP2_p26 GGCACCAGGCCAAGUUCUA 4785 UAGAACUUGGCCUGGUGCC 4833 18 + 1  [855-872] ORF siTIMP2_p28 GCAACAGGCGUUUUGCAAA 4786 UUUGCAAAACGCCUGUUGC 4834 18 + 1  [403-420] ORF siTIMP2_p31 GACGUUGGAGGAAAGAAGA 4787 UCUUCUUUCCUCCAACGUC 4835 18 + 1  [608-625] ORF siTIMP2_p32 GAUCAAGCAGAUAAAGAUA 4788 UAUCUUUAUCUGCUUGAUC 4836 18 + 1  [517-534] ORF siTIMP2_p34 UGAGAUCAAGCAGAUAAAA 4789 UUUUAUCUGCUUGAUCUCA 4837 18 + 1  [514-531] ORF siTIMP2_p36 UGUGCAUUUUGCAGAAACA 4790 UGUUUCUGCAAAAUGCACA 4838 18 + 1 [1331-1348] 3′UTR siTIMP2_p42 GAACCACAGGUACCAGAUA 4791 UAUCUGGUACCUGUGGUUC 4839 18 + 1  [733-750] ORF siTIMP2_p43 CACCCAGAAGAAGAGCCUA 4792 UAGGCUCUUCUUCUGGGUG 4840 18 + 1  [715-732] ORF siTIMP2_p45 CCUUCCUGGAAACAGCAUA 4793 UAUGCUGUUUCCAGGAAGG 4841 18 + 1 [1039-1056] 3′UTR siTIMP2_p47 UGGGCUGCGAGUGCAAGAA 4794 UUCUUGCACUCGCAGCCCA 4842 18 + 1  [750-767] ORF siTIMP2_p48 GAUGGGCUGCGAGUGCAAA 4795 UUUGCACUCGCAGCCCAUC 4843 18 + 1  [748-765] ORF siTIMP2_p49 AUCCCUUCCUGGAAACAGA 4796 UCUGUUUCCAGGAAGGGAU 4844 18 + 1 [1036-1053] 3′UTR siTIMP2_p50 AGUGCCUCUGGAUGGACUA 4797 UAGUCCAUCCAGAGGCACU 4845 18 + 1  [813-830] ORF siTIMP2_p52 UGGAGGAAAGAAGGAAUAA 4798 UUAUUCCUUCUUUCCUCCA 4846 18 + 1  [613-630] ORF siTIMP2_p53 GGGCACCAGGCCAAGUUCA 4799 UGAACUUGGCCUGGUGCCC 4847 18 + 1  [854-871] ORF siTIMP2_p54 GUGCAUUUUGCAGAAACUA 4800 UAGUUUCUGCAAAAUGCAC 4848 18 + 1 [1332-1349] 3′UTR siTIMP2_p56 CCAGAUGGGCUGCGAGUGA 4801 UCACUCGCAGCCCAUCUGG 4849 18 + 1  [745-762] ORF siTIMP2_p57 CGAGUGCCUCUGGAUGGAA 4802 UUCCAUCCAGAGGCACUCG 4850 18 + 1  [811-828] ORF siTIMP2_p58 CUGCGAGUGCAAGAUCACA 4803 UGUGAUCUUGCACUCGCAG 4851 18 + 1  [754-771] ORF siTIMP2_p59 UCUGGAUGGACUGGGUCAA 4804 UUGACCCAGUCCAUCCAGA 4852 18 + 1  [819-836] ORF siTIMP2_p60 GUACCAGAUGGGCUGCGAA 4805 UUCGCAGCCCAUCUGGUAC 4853 18 + 1  [742-759] ORF siTIMP2_p63 GUAGUGAUCAGGGCCAAAA 4806 UUUUGGCCCUGAUCACUAC 4854 18 + 1  [428-445] ORF siTIMP2_p66 GGCGCUCGGCCUCCUGCUA 4807 UAGCAGGAGGCCGAGCGCC 4855 18 + 1  [331-348] ORF siTIMP2_p70 UGGAUGGACUGGGUCACAA 4808 UUGUGACCCAGUCCAUCCA 4856 18 + 1  [821-838] ORF siTIMP2_p72 CCCUUCCUGGAAACAGCAA 4809 UUGCUGUUUCCAGGAAGGG 4857 18 + 1 [1038-1055] 3′UTR siTIMP2_p73 ACCAGAUGGGCUGCGAGUA 4810 UACUCGCAGCCCAUCUGGU 4858 18 + 1  [744-761] ORF siTIMP2_p74 ACAGGUACCAGAUGGGCUA 4811 UAGCCCAUCUGGUACCUGU 4859 18 + 1  [738-755] ORF siTIMP2_p77 CGGGCACCAGGCCAAGUUA 4812 UAACUUGGCCUGGUGCCCG 4860 18 + 1  [853-870] ORF siTIMP2_p80 CAUCCCUUCCUGGAAACAA 4813 UUGUUUCCAGGAAGGGAUG 4861 18 + 1 [1035-1052] 3′UTR siTIMP2_p81 CACCCGCAACAGGCGUUUA 4814 UAAACGCCUGUUGCGGGUG 4862 18 + 1  [398-415] ORF

TABLE B8 18 + 1 -mer siTIMP2 with lowest predicted OT effect SEQ SEQ Cross ID ID No. in species: Ranking Sense (5′ > 3′) NO: Antisense (5′ > 3′) NO: Table B7 H/Rt 3 CUGCAUCAAGAGAAGUGAA 4771 UUCACUUCUCUUGAUGCAG 4819 siTIMP2_p6 H/Rt 3 GGCGUUUUGCAAUGCAGAA 4774 UUCUGCAUUGCAAAACGCC 4822 siTIMP2_p9 H/Rt 4 GGGCUGCGAGUGCAAGAUA 4780 UUCUGCAUUGCAAAACGCC 4828 siTIMP2_p15 H/Rt 4 GACAUCCCUUCCUGGAAAA 4781 UUCUGCAUUGCAAAACGCC 4829 siTIMP2_p19 H/Rt 4 GAUGGACUGGGUCACAGAA 4782 UUCUGCAUUGCAAAACGCC 4830 siTIMP2_p21 H/Rt 4 GCCUCUGGAUGGACUGGGA 4783 UUCUGCAUUGCAAAACGCC 4831 siTIMP2_p22 H/Rt 4 GAGUGCCUCUGGAUGGACA 4784 UUCUGCAUUGCAAAACGCC 4832 siTIMP2_p23 H/Rt 2 GCAACAGGCGUUUUGCAAA 4786 UUUGCAAAACGCCUGUUGC 4834 siTIMP2_p28 H/Rt 3 GACGUUGGAGGAAAGAAGA 4787 UCUUCUUUCCUCCAACGUC 4835 siTIMP2_p31 H/Rt 4 UGUGCAUUUUGCAGAAACA 4790 UGUUUCUGCAAAAUGCACA 4838 siTIMP2_p36 H/Rt 4 GAACCACAGGUACCAGAUA 4791 UAUCUGGUACCUGUGGUUC 4839 siTIMP2_p42 H/Rt 4 UGGGCUGCGAGUGCAAGAA 4794 UUCUUGCACUCGCAGCCCA 4842 siTIMP2_p47 H/Rt 4 AGUGCCUCUGGAUGGACUA 4797 UAGUCCAUCCAGAGGCACU 4845 siTIMP2_p50 H/Rt 4 CCAGAUGGGCUGCGAGUGA 4801 UCACUCGCAGCCCAUCUGG 4849 siTIMP2_p56 H/Rt 4 CGAGUGCCUCUGGAUGGAA 4802 UUCCAUCCAGAGGCACUCG 4850 siTIMP2_p57 H/Rt 2 CUGCGAGUGCAAGAUCACA 4803 UGUGAUCUUGCACUCGCAG 4851 siTIMP2_p58 H/Rt 3 GUACCAGAUGGGCUGCGAA 4805 UUCGCAGCCCAUCUGGUAC 4853 siTIMP2_p60 H/Rt 2 GUAGUGAUCAGGGCCAAAA 4806 UUUUGGCCCUGAUCACUAC 4854 siTIMP2_p63 H/Rt 3 UGGAUGGACUGGGUCACAA 4808 UUGUGACCCAGUCCAUCCA 4856 siTIMP2_p70 H/Rt 4 ACCAGAUGGGCUGCGAGUA 4810 UACUCGCAGCCCAUCUGGU 4858 siTIMP2_p73 H/Rt 4 ACAGGUACCAGAUGGGCUA 4811 UAGCCCAUCUGGUACCUGU 4859 siTIMP2_p74 H/Rt 2 CACCCGCAACAGGCGUUUA 4814 UAAACGCCUGUUGCGGGUG 4862 siTIMP2_p81

Example 6 In Vitro Testing of the siRNA Compounds for the Target Genes

Low-Throughput-Screen (LTS) for siRNA oligos directed to human and rat TIMP1 and TIMP2 gene.

About 2×10⁵ human cell lines (HeLa, LX2, hHSC or PC3) endogenously expressing TIMP1 or TIMP2 gene, are inoculated in 1.5 mL growth medium in order to reach 30-50% confluence after 24 hours. Cells are transfected with Lipofectamine-2000® reagent to a final concentration of 0.01-5 nM per transfected cells. Cells aere incubated at 37±1° C., 5% CO₂ for 48 hours. siRNA transfected cells are harvested and RNA is isolated using EZ-RNA® kit [Biological Industries (#20-410-100)].

Reverse transcription is performed as follows: Synthesis of cDNA is performed and human TIMP1 and TIMP2 mRNA levels are determined by Real Time qPCR and normalized to those of the Cyclophilin A (CYNA, PPIA) mRNA for each sample. siRNA activity is determined based on the ratio of the TIMP1 or TIMP2 mRNA quantity in siRNA-treated samples versus non-transfected control samples.

The most active sequences are selected from additional, assays.

IC50 Values for the LTS Selected TIMP1 or TIMP2 siRNA Oligos

Cells are grown as described above. The IC50 value of the tested RNAi activity is determined by constructing a dose-response curve using the activity results obtained with the various final siRNA concentrations. The dose response curve is constructed by plotting the relative amount of residual TIMP1 or TIMP2 mRNA versus the logarithm of transfected siRNA concentration. The curve is calculated by fitting the best sigmoid curve to the measured data. The method for the sigmoid fit is also known as a 3-point curve fit.

$Y + {Bot} + \frac{100 - {Bot}}{1 + 10^{{({{{LogIC}\; 50} - X})} \times {HillSlope}}}$

where Y is the residual TIMP1 or TIMP2 mRNA response, X is the logarithm of transfected siRNA concentration, Bot is the Y value at the bottom plateau, LogIC50 is the X value when Y is halfway between bottom and top plateaus and HillSlope is the steepness of the curve.

The percent of inhibition of gene expression using specific siRNAs was determined using qPCR analysis of target gene in cells expressing the endogenous gene. Other siRNA compounds according to Tables A1, A2, A3, A4, A5, A6, A7, A8, B1, B2, B3, B4, B5, B6, B7, B8 (Tables A1-B8) are tested in vitro where it is shown that these siRNA compounds inhibit gene expression. Activity is shown as percent residual mRNA; accordingly, a lower value reflects better activity.

In order to test the stability of the siRNA compounds in serum, specific siRNA molecules are incubated in four different batches of human serum (100% concentration) at 37° C. for up to 24 hours. Samples are collected at 0.5, 1, 3, 6, 8, 10, 16 and 24 hours. The migration patterns as an indication of are determined at each collection time by polyacrylamide gel electrophoresis (PAGE).

Example 7 Validation of siTIMP1 and siTIMP2 Knock Down Effect at the Protein Level

The inhibitory effect of different siTIMP1 and siTIMP2 siNA molecules on TIMP1 and TIMP2 mRNA expression are validated at the protein level by measuring TIMP1 and TIMP2 in hTERT cells transfected with different siTIMP1 and siTIMP2. Transfection of hTERT cells with different siTIMP1 and siTIMP2 are performed as described above. Transfected hTERT cells are lysed and the cell lysate are clarified by centrifugation. Proteins in the clarified cell lysate are resolved by SDS polyacrylamide gel electrophoresis. The level of TIMP1 and TIMP2 protein in the cell lysate are determined using anti-TIMP or anti-TIMP2 antibodies as the primary antibody HRP conjugated antibodies (Millipore) as the secondary antibody, and subsequently detection by Supersignal West Pico Chemiluminescence kit (Pierce). Anti-actin antibody (Abcam) is used as a protein loading control.

Example 8 Downregulation of Collagen I Expression by siTIMP1 and siTIMP2 siRNA Duplexes

To determine the effect of siTIMP1 and siTIMP2, alone or in combination on collagen I expression level, collagen I mRNA level in hTERT cells treated with different siTIMP1 and or siTIMP2. Briefly, hTERT cells are transfected with different siTIMP1, and or siTIMP2 as described in Example 2. The cells are lysed after 72 hours and mRNA were isolated using RNeasy mini kit according to the manual (Qiagen). The level of collagen 1 mRNA is determined by reverse transcription coupled with quantitative PCR using TaqMan® probes. Briefly, cDNA synthesis is carried out using High-Capacity cDNA Reverse Transcription Kit (ABI) according to the manual, and subjected to TaqMan Gene Expression Assay (ABI, COL1A1 assay ID Hs01076780_g1). The level of collagen I mRNA is normalized to the level of GAPDH mRNA according to the manufacturer's instruction (ABI). The signals are normalized to the signal obtained from cells transfected with scrambled siNA.

Example 9 Immunofluorescence Staining of siTIMP1 and or siTIMP2 treated hTERT Cells

To visualize the expression of two fibrosis markers, collagen I and alpha-smooth muscle actin (SMA), in hTERT cells transfected, the cells are stained with rabbit anti-collagen I antibody (Abcam) and mouse anti-alpha-SMA antibody (Sigma). Alexa Fluor 594 goat anti-mouse IgG and Alexa Fluor 488 goat anti-rabbit IgG (Invitrogen (Molecular Probes)) are used as secondary antibodies to visualize collagen I (green) and alpha-SMA (red). Hoescht is used to visualize nuleus (blue).

Example 10 Animal Models: Model Systems of Fibrotic Conditions

siRNAs provided herein may be tested in predictive animal models. Rat diabetic and aging models of kidney fibrosis include Zucker diabetic fatty (ZDF) rats, aged fa/fa (obese Zucker) rats, aged Sprague-Dawley (SD) rats, and Goto Kakizaki (GK) rats; GK rats are an inbred strain derived from Wistar rats, selected for spontaneous development of NIDDM (diabetes type II). Induced models of kidney fibrosis include the permanent unilateral ureteral obstruction (UUO) model which is a model of acute interstitial fibrosis occurring in healthy non-diabetic animals; renal fibrosis develops within days following the obstruction. Another induced model of kidney fibrosis is 5/6 nephrectomy model.

Two models of liver fibrosis in rats are the Bile Duct Ligation (BDL) with sham operation as controls, and CCl4 poisoning, with olive oil fed animals as controls, as described in the following references: Lotersztajn S, et al Hepatic Fibrosis: Molecular Mechanisms and Drug Targets. Annu Rev Pharmacol Toxicol. 2004 Oct. 7; Uchio K, et al., Down-regulation of connective tissue growth factor and type I collagen mRNA expression by connective tissue growth factor antisense oligonucleotide during experimental liver fibrosis. Wound Repair Regen. 2004 January-February; 12(1):60-6; Xu X Q, et al., Molecular classification of liver cirrhosis in a rat model by proteomics and bioinformatics Proteomics. 2004 October; 4(10):3235-45.

Models for ocular scarring are well known in the art e.g. Sherwood M B et al., J Glaucoma. 2004 October; 13(5):407-12. A new model of glaucoma filtering surgery in the rat; Miller M H et al., Ophthalmic Surg. 1989 May; 20(5):350-7. Wound healing in an animal model of glaucoma fistulizing surgery in the Rb; vanBockxmeer F M et al., Retina. 1985 Fall-Winter; 5(4): 239-52. Models for assessing scar tissue inhibitors; Wiedemann P et al., J Pharmacol Methods. 1984 August; 12(1): 69-78. Proliferative vitreoretinopathy: the Rb cell injection model for screening of antiproliferative drugs.

Models of cataract are described in the following publications: The role of Src family kinases in cortical cataract formation. Zhou J, Menko A S. Invest Ophthalmol V is Sci. 2002 July; 43(7):2293-300; Bioavailability and anticataract effects of a topical ocular drug delivery system containing disulfuram and hydroxypropyl-beta-cyclodextrin on selenite-treated rats. Wang S, et al. Curr Eye Res. 2004 July; 29(1):51-8; and Long-term organ culture system to study the effects of UV-A irradiation on lens transglutaminase. Weinreb O, Dovrat A.; Curr Eye Res. 2004 July; 29(1):51-8.

The compounds disclosed herein are tested in these models of fibrotic conditions, in which it is found that they are effective in treating liver fibrosis and other fibrotic conditions. The compounds as described herein are tested in this animal model and the results show that these siRNA compounds are useful in treating and/or preventing ischemia reperfusion injury following lung transplantation.

The contents of the articles, patents, and patent applications, and all other documents and electronically available information mentioned or cited herein, are hereby incorporated by reference in their entirety to the same extent as if each individual publication was specifically and individually indicated to be incorporated by reference.

Applicants reserve the right to physically incorporate into this application any and all materials and information from any such articles, patents, patent applications, or other physical and electronic documents.

It will be readily apparent to one skilled in the art that varying substitutions and modifications can be made to the invention disclosed herein without departing from the scope and spirit of the invention. Thus, such additional embodiments are within the scope of the present invention and the following claims. The present disclosure teaches one skilled in the art to test various combinations and/or substitutions of chemical modifications described herein toward generating nucleic acid constructs with improved activity for mediating RNAi activity. Such improved activity can include improved stability, improved bioavailability, and/or improved activation of cellular responses mediating RNAi. Therefore, the specific embodiments described herein are not limiting and one skilled in the art can readily appreciate that specific combinations of the modifications described herein can be tested without undue experimentation toward identifying nucleic acid molecules with improved RNAi activity.

The inventions illustratively described herein may suitably be practiced in the absence of any element or elements, limitation or limitations, not specifically disclosed herein. Thus, for example, the terms “a” and “an” and “the” and similar referents in the context of describing the invention (especially in the context of the following claims) are to be construed to cover both the singular and the plural, unless otherwise indicated herein or clearly contradicted by context. The terms “comprising”, “having,” “including,” containing”, etc. shall be read expansively and without limitation (e.g., meaning “including, but not limited to,”). Recitation of ranges of values herein are merely intended to serve as a shorthand method of referring individually to each separate value falling within the range, unless otherwise indicated herein, and each separate value is incorporated into the specification as if it were individually recited herein. All methods described herein can be performed in any suitable order unless otherwise indicated herein or otherwise clearly contradicted by context. The use of any and all examples, or exemplary language (e.g., “such as”) provided herein, is intended merely to better illuminate the invention and does not pose a limitation on the scope of the invention unless otherwise claimed. No language in the specification should be construed as indicating any non-claimed element as essential to the practice of the invention. Additionally, the terms and expressions employed herein have been used as terms of description and not of limitation, and there is no intention in the use of such terms and expressions of excluding any equivalents of the features shown and described or portions thereof, but it is recognized that various modifications are possible within the scope of the invention claimed. Thus, it should be understood that although the present invention has been specifically disclosed by preferred embodiments and optional features, modification and variation of the inventions embodied therein herein disclosed may be resorted to by those skilled in the art, and that such modifications and variations are considered to be within the scope of this invention.

The invention has been described broadly and generically herein. Each of the narrower species and subgeneric groupings falling within the generic disclosure also form part of the invention. This includes the generic description of the invention with a proviso or negative limitation removing any subject matter from the genus, regardless of whether or not the excised material is specifically recited herein. Other embodiments are within the following claims. In addition, where features or aspects of the invention are described in terms of Markush groups, those skilled in the art will recognize that the invention is also thereby described in terms of any individual member or subgroup of members of the Markush group. 

1. A nucleic acid molecule, wherein: (a) the nucleic acid molecule comprises a sense strand and an antisense strand; (b) each strand of the nucleic acid molecule is independently 15 to 49 nucleotides in length; (c) a 15 to 49 nucleotide sequence of the antisense strand is complementary to a sequence of an mRNA encoding TIMP1 (SEQ ID NO:1) or TIMP2 (SEQ ID NO:2); and (d) a 15 to 49 nucleotide sequence of the sense strand is complementary to the antisense strand thereby generating a duplex region and includes a 15 to 49 nucleotide sequence of an mRNA encoding TIMP1 (SEQ ID NO:1) or TIMP2 (SEQ ID NO:2).
 2. The nucleic acid molecule of claim 1 wherein the sequence of the antisense strand is complementary to a sequence of an mRNA encoding human TIMP1 (SEQ ID NO:1), and wherein the antisense strand and the sense strand comprise a sequence pair selected from the group consisting of siTIMP1_p2 (SEQ ID NOS:267 and 299); siTIMP1_p6 (SEQ ID NOS:268 and 300); siTIMP1_p14 (SEQ ID NOS:269 and 301); siTIMP1_p16 (SEQ ID NOS:270 and 302); siTIMP1_p17 (SEQ ID NOS:271 and 303); siTIMP1_p19 (SEQ ID NOS:272 and 304); siTIMP1_p20 (SEQ ID NOS:273 and 305); siTIMP1_p21 (SEQ ID NOS:274 and 306); siTIMP1_p23 (SEQ ID NOS:275 and 307; siTIMP1_p29 (278 and 310); siTIMP1_p33 (280 and 312); siTIMP1_p38 (SEQ ID NOS:281 and 313); siTIMP1_p42 (282 and 314); siTIMP1_p43 (SEQ ID NOS:283 and 315); siTIMP1_p45 (284 and 316); siTIMP1_p60 (SEQ ID NOS:286 and 318); siTIMP1_p71 (SEQ ID NOS:287 and 319); siTIMP1_p73 (SEQ ID NOS:288 and 320); siTIMP1_p78 (290 and 322); siTIMP1_p79 (SEQ ID NOS:291 and 323); siTIMP1_p85 (SEQ ID NOS:292 and 324); siTIMP1_p89 (SEQ ID NOS:293 and 325); siTIMP1_p91 (SEQ ID NOS:294 and 326); siTIMP1_p96 (SEQ ID NOS:295 and 327); siTIMP1_p98 (SEQ ID NOS:296 and 328); siTIMP1_p99 (SEQ ID NOS:297 and 329) and siTIMP1_p108 (SEQ ID NOS:298 and 330).
 3. The nucleic acid molecule of claim 1, wherein the sequence of the antisense strand is complementary to a sequence of an mRNA encoding human TIMP1, and wherein the sense strand and the antisense strand are selected from the sequence pairs shown in Table C set forth as TIMP1-A (SEQ ID NOS:5 and 6); TIMP1-B (SEQ ID NOS:7 and 8) and TIMP1-C (SEQ ID NO:9 and 10).
 4. The nucleic acid molecule of claim 1, wherein the sequence of the antisense strand that is complementary to a sequence of an mRNA encoding human TIMP1 comprises a sequence complimentary to a sequence between nucleotides 300-400 of SEQ ID NO: 1, 355-373 of SEQ ID NO: 1, 600-750 of SEQ ID NO: 1, 620-638 of SEQ ID NO: 1 or 640-658 of SEQ ID NO:
 1. 5. (canceled)
 6. (canceled)
 7. (canceled)
 8. (canceled)
 9. The nucleic acid molecule of claim 1, wherein the sequence of the antisense strand is complementary to a sequence of an mRNA encoding human TIMP2, and wherein the sense strand and the antisense strand are selected from the sequence pairs shown in Table D.
 10. The nucleic acid molecule of claim 1, wherein the sequence of the antisense strand is complementary to a sequence of an mRNA encoding human TIMP2 and comprises a sequence complimentary to a sequence between nucleotides 400-500 of SEQ ID NO: 2, 500-600 of SEQ ID NO: 2, 600-700 of SEQ ID NO: 2, and 698-716 of SEQ ID NO:
 2. 11. (canceled)
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 18. The nucleic acid molecule of claim 1, wherein the antisense strand and the sense strand are independently 17 to 49 nucleotides in length.
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 24. The nucleic acid molecule of claim 1, wherein the antisense strand and the sense strand are each 19 nucleotides in length.
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 32. The nucleic acid molecule of claim 1, wherein the duplex region is 19 nucleotides in length.
 33. The nucleic acid molecule of claim 1, wherein the antisense strand and the sense strand are separate polynucleotide strands.
 34. (canceled)
 35. (canceled)
 36. The nucleic acid molecule of claim 1, wherein the sense strand and the antisense strands are part of a single polynucleotide strand having both a sense region and an antisense region.
 37. (canceled)
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 57. The nucleic acid molecule of claim 1, wherein the nucleic acid molecule comprises one or more modifications or modified nucleotides.
 58. (canceled)
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 86. A method for treating an individual suffering from a disease associated with TIMP1 or TIMP2, wherein (a) when the disease is associated with TIMP1, the method comprises administering to said individual a nucleic acid molecule of claim 1 comprising a sequence of the antisense strand complementary to a sequence of a mRNA encoding human TIMP1, in an amount sufficient to reduce expression of TIMP1; and (b) when the disease is associated with TIMP2, the method comprises administering to said individual a nucleic acid molecule of claim 1—comprising a sequence of the antisense strand complementary to a sequence of a mRNA encoding human TIMP2, in an amount sufficient to reduce expression of TIMP2.
 87. (canceled)
 88. The method of claim 86, wherein said disease associated with TIMP1 or TIMP2 is fibrosis.
 89. A composition comprising a nucleic acid molecule of any of claim 1-4, 9, 10, 24, 32, 33, 36, 57, 98, 99, 105, 125-128 or 133 and a pharmaceutically acceptable carrier.
 90. (canceled)
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 97. (canceled)
 98. A double stranded nucleic acid molecule having the structure (A 1): (A1) 5′    (N)x-Z 3′ (antisense strand) 3′ Z′-(N′)y -z″ 5′ (sense strand)

wherein each of N and N′ is a ribonucleotide which may be unmodified or modified, or an unconventional moiety; wherein each of (N)x and (N′)y is an oligonucleotide in which each consecutive N or N′ is joined to the next N or N′ by a covalent bond; wherein each of Z and Z′ is independently present or absent, but if present is independently 1-5 consecutive nucleotides or unconventional moieties or a combination thereof covalently attached at the 3′ terminus of the strand in which it is present. wherein z″ may be present or absent, but if present is a capping moiety covalently attached at the 5′ terminus of (N′)y; wherein each of x and y is independently an integer from 18 to 40; wherein the sequence of (N′)y has complementarity to the sequence of (N)x; and wherein (N)x comprises an antisense sequence to an mRNA set forth in SEQ ID NO:1 or SEQ ID NO:2.
 99. The nucleic acid molecule of claim 98 having the structure (A1), wherein (N)x comprises an antisense sequence to an mRNA set forth in SEQ ID NO:1 and wherein (N)x comprises an antisense oligonucleotide present in any one of Tables A 1, A2, A3 or A4; or wherein (N)x comprises an antisense sequence to an mRNA set forth in SEQ ID NO:2 and wherein (N)x comprises an antisense oligonucleotide present in any one of Tables B1, B2, B3 or B4.
 100. (canceled)
 101. (canceled)
 102. (canceled)
 103. (canceled)
 104. (canceled)
 105. The nucleic acid molecule of claim 98, wherein x=y=19.
 106. (canceled)
 107. (canceled)
 108. (canceled)
 109. (canceled)
 110. (canceled)
 111. (canceled)
 112. (canceled)
 113. (canceled)
 114. (canceled)
 115. (canceled)
 116. (canceled)
 117. (canceled)
 118. (canceled)
 119. (canceled)
 120. (canceled)
 121. (canceled)
 122. (canceled)
 123. (canceled)
 124. (canceled)
 125. A double stranded nucleic acid molecule having a structure (A2) set forth below: (A2) 5′    N1-(N)x - Z 3′ (antisense strand) 3′ Z′-N2-(N′)y -z″ 5′ (sense strand)

wherein each of N2, N and N′ is independently an unmodified or modified ribonucleotide, or an unconventional moiety; wherein each of (N)x and (N′)y is an oligonucleotide in which each consecutive N or N′ is joined to the adjacent N or N′ by a covalent bond; wherein each of x and y is independently an integer from 17 to 39; wherein the sequence of (N′)y has complementarity to the sequence of (N)x and (N)x has complementarity to a consecutive sequence in the mRNA set forth in SEQ ID NO:1 or SEQ ID NO:2; wherein N1 is covalently bound to (N)x and is mismatched to the mRNA set forth in SEQ ID NO:1 or SEQ ID NO:2; wherein N1 is a moiety selected from the group consisting of ribouridine, modified ribouridine deoxyribouridine, modified deoxyribouridine, riboadenine, modified riboadenine deoxyriboadenine, and modified deoxyriboadenine; wherein z″ may be present or absent, but if present is a capping moiety covalently attached at the 5′ terminus of (N′)y; and wherein each of Z and Z′ is independently present or absent, but if present is independently 1-5 consecutive nucleotides or unconventional moieties or a combination thereof covalently attached at the 3′ terminus of the strand in which it is present.
 126. The nucleic acid molecule of claim 125 wherein x=y=18.
 127. The nucleic acid molecule of claim 125, wherein (N)x comprises an antisense sequence to an mRNA set forth in SEQ ID NO:1 or SEQ ID NO:2.
 128. The nucleic acid molecule of claim 127, having the structure (A2), wherein (N)x comprises an antisense sequence to an mRNA set forth in SEQ ID NO:1, comprising an antisense oligonucleotide present in any one of Tables A5, A6, A7, A8; or wherein (N)x comprises an antisense sequence to an mRNA set forth in SEQ ID NO:2, comprising an antisense oligonucleotide present in any one of Tables B5, B6, B7, or B8.
 129. (canceled)
 130. (canceled)
 131. (canceled)
 132. (canceled)
 133. A nucleic acid molecule consisting of four ribonucleotide strands forming three siRNA duplexes having the general structure:

wherein each of oligo A, oligo B, oligo C, oligo D, oligo E and oligo F represents at least 19 consecutive ribonucleotides, wherein from 19 to 40 of such consecutive ribonucleotides, in each of oligo A, B, C, D, E and F comprise a strand of a siRNA duplex, wherein each ribonucleotide may be modified or unmodified; wherein strand 1 comprises oligo A which is either a sense portion or an antisense portion of a first siRNA duplex of the nucleic acid molecule, strand 2 comprises oligo B which is complementary to at least 19 nucleotides in oligo A, and oligo A and oligo B together form a first siRNA duplex that targets a first target mRNA; wherein strand 1 further comprises oligo C which is either a sense portion or an antisense strand portion of a second siRNA duplex of the nucleic acid molecule, strand 3 comprises oligo D which is complementary to at least 19 nucleotides in oligo C and oligo C and oligo D together form a second siRNA duplex that targets a second target mRNA; wherein strand 4 comprises oligo E which is either a sense portion or an antisense strand portion of a third siRNA duplex of the nucleic acid molecule, strand 2 further comprises oligo F which is complementary to at least 19 nucleotides in oligo E and oligo E and oligo F together form a third siRNA duplex that targets a third target mRNA; wherein linker A is a moiety that covalently links oligo A and oligo C; linker B is a moiety that covalently links oligo B and oligo F, and linker A and linker B can be the same or different; and wherein the nucleic acid molecule includes at least one antisense strand and sense strand pair set forth in any one of Tables A1-A8 and Tables B1-B8.
 134. (canceled)
 135. (canceled)
 136. (canceled)
 137. (canceled)
 138. (canceled)
 139. (canceled)
 140. (canceled)
 141. (canceled)
 142. (canceled)
 143. (canceled)
 144. (canceled)
 145. (canceled) 